OSCR

Mapping human microglial morphological diversity via handcrafted and deep learning-derived image features.

Code ↔ Paper

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Paper

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The authors' code

C · 508 lines · 15 KB · LGPL-2.1

  1. #ifdef __cplusplus
  2. # error "A C++ compiler has been selected for C."
  3. #endif
  5. #if defined(__18CXX)
  6. # define ID_VOID_MAIN
  7. #endif
  10. /* Version number components: V=Version, R=Revision, P=Patch
  11. Version date components: YYYY=Year, MM=Month, DD=Day */
  13. #if defined(__INTEL_COMPILER) || defined(__ICC)
  14. # define COMPILER_ID "Intel"
  15. # if defined(_MSC_VER)
  16. # define SIMULATE_ID "MSVC"
  17. # endif
  18. /* __INTEL_COMPILER = VRP */
  19. # define COMPILER_VERSION_MAJOR DEC(__INTEL_COMPILER/100)
  20. # define COMPILER_VERSION_MINOR DEC(__INTEL_COMPILER/10 % 10)
  21. # if defined(__INTEL_COMPILER_UPDATE)
  22. # define COMPILER_VERSION_PATCH DEC(__INTEL_COMPILER_UPDATE)
  23. # else
  24. # define COMPILER_VERSION_PATCH DEC(__INTEL_COMPILER % 10)
  25. # endif
  26. # if defined(__INTEL_COMPILER_BUILD_DATE)
  27. /* __INTEL_COMPILER_BUILD_DATE = YYYYMMDD */
  28. # define COMPILER_VERSION_TWEAK DEC(__INTEL_COMPILER_BUILD_DATE)
  29. # endif
  30. # if defined(_MSC_VER)
  31. /* _MSC_VER = VVRR */
  32. # define SIMULATE_VERSION_MAJOR DEC(_MSC_VER / 100)
  33. # define SIMULATE_VERSION_MINOR DEC(_MSC_VER % 100)
  34. # endif
  36. #elif defined(__PATHCC__)
  37. # define COMPILER_ID "PathScale"
  38. # define COMPILER_VERSION_MAJOR DEC(__PATHCC__)
  39. # define COMPILER_VERSION_MINOR DEC(__PATHCC_MINOR__)
  40. # if defined(__PATHCC_PATCHLEVEL__)
  41. # define COMPILER_VERSION_PATCH DEC(__PATHCC_PATCHLEVEL__)
  42. # endif
  44. #elif defined(__BORLANDC__) && defined(__CODEGEARC_VERSION__)
  45. # define COMPILER_ID "Embarcadero"
  46. # define COMPILER_VERSION_MAJOR HEX(__CODEGEARC_VERSION__>>24 & 0x00FF)
  47. # define COMPILER_VERSION_MINOR HEX(__CODEGEARC_VERSION__>>16 & 0x00FF)
  48. # define COMPILER_VERSION_PATCH HEX(__CODEGEARC_VERSION__ & 0xFFFF)
  50. #elif defined(__BORLANDC__)
  51. # define COMPILER_ID "Borland"
  52. /* __BORLANDC__ = 0xVRR */
  53. # define COMPILER_VERSION_MAJOR HEX(__BORLANDC__>>8)
  54. # define COMPILER_VERSION_MINOR HEX(__BORLANDC__ & 0xFF)
  56. #elif defined(__WATCOMC__) && __WATCOMC__ < 1200
  57. # define COMPILER_ID "Watcom"
  58. /* __WATCOMC__ = VVRR */
  59. # define COMPILER_VERSION_MAJOR DEC(__WATCOMC__ / 100)
  60. # define COMPILER_VERSION_MINOR DEC((__WATCOMC__ / 10) % 10)
  61. # if (__WATCOMC__ % 10) > 0
  62. # define COMPILER_VERSION_PATCH DEC(__WATCOMC__ % 10)
  63. # endif
  65. #elif defined(__WATCOMC__)
  66. # define COMPILER_ID "OpenWatcom"
  67. /* __WATCOMC__ = VVRP + 1100 */
  68. # define COMPILER_VERSION_MAJOR DEC((__WATCOMC__ - 1100) / 100)
  69. # define COMPILER_VERSION_MINOR DEC((__WATCOMC__ / 10) % 10)
  70. # if (__WATCOMC__ % 10) > 0
  71. # define COMPILER_VERSION_PATCH DEC(__WATCOMC__ % 10)
  72. # endif
  74. #elif defined(__SUNPRO_C)
  75. # define COMPILER_ID "SunPro"
  76. # if __SUNPRO_C >= 0x5100
  77. /* __SUNPRO_C = 0xVRRP */
  78. # define COMPILER_VERSION_MAJOR HEX(__SUNPRO_C>>12)
  79. # define COMPILER_VERSION_MINOR HEX(__SUNPRO_C>>4 & 0xFF)
  80. # define COMPILER_VERSION_PATCH HEX(__SUNPRO_C & 0xF)
  81. # else
  82. /* __SUNPRO_CC = 0xVRP */
  83. # define COMPILER_VERSION_MAJOR HEX(__SUNPRO_C>>8)
  84. # define COMPILER_VERSION_MINOR HEX(__SUNPRO_C>>4 & 0xF)
  85. # define COMPILER_VERSION_PATCH HEX(__SUNPRO_C & 0xF)
  86. # endif
  88. #elif defined(__HP_cc)
  89. # define COMPILER_ID "HP"
  90. /* __HP_cc = VVRRPP */
  91. # define COMPILER_VERSION_MAJOR DEC(__HP_cc/10000)
  92. # define COMPILER_VERSION_MINOR DEC(__HP_cc/100 % 100)
  93. # define COMPILER_VERSION_PATCH DEC(__HP_cc % 100)
  95. #elif defined(__DECC)
  96. # define COMPILER_ID "Compaq"
  97. /* __DECC_VER = VVRRTPPPP */
  98. # define COMPILER_VERSION_MAJOR DEC(__DECC_VER/10000000)
  99. # define COMPILER_VERSION_MINOR DEC(__DECC_VER/100000 % 100)
  100. # define COMPILER_VERSION_PATCH DEC(__DECC_VER % 10000)
  102. #elif defined(__IBMC__) && defined(__COMPILER_VER__)
  103. # define COMPILER_ID "zOS"
  104. /* __IBMC__ = VRP */
  105. # define COMPILER_VERSION_MAJOR DEC(__IBMC__/100)
  106. # define COMPILER_VERSION_MINOR DEC(__IBMC__/10 % 10)
  107. # define COMPILER_VERSION_PATCH DEC(__IBMC__ % 10)
  109. #elif defined(__IBMC__) && !defined(__COMPILER_VER__) && __IBMC__ >= 800
  110. # define COMPILER_ID "XL"
  111. /* __IBMC__ = VRP */
  112. # define COMPILER_VERSION_MAJOR DEC(__IBMC__/100)
  113. # define COMPILER_VERSION_MINOR DEC(__IBMC__/10 % 10)
  114. # define COMPILER_VERSION_PATCH DEC(__IBMC__ % 10)
  116. #elif defined(__IBMC__) && !defined(__COMPILER_VER__) && __IBMC__ < 800
  117. # define COMPILER_ID "VisualAge"
  118. /* __IBMC__ = VRP */
  119. # define COMPILER_VERSION_MAJOR DEC(__IBMC__/100)
  120. # define COMPILER_VERSION_MINOR DEC(__IBMC__/10 % 10)
  121. # define COMPILER_VERSION_PATCH DEC(__IBMC__ % 10)
  123. #elif defined(__PGI)
  124. # define COMPILER_ID "PGI"
  125. # define COMPILER_VERSION_MAJOR DEC(__PGIC__)
  126. # define COMPILER_VERSION_MINOR DEC(__PGIC_MINOR__)
  127. # if defined(__PGIC_PATCHLEVEL__)
  128. # define COMPILER_VERSION_PATCH DEC(__PGIC_PATCHLEVEL__)
  129. # endif
  131. #elif defined(_CRAYC)
  132. # define COMPILER_ID "Cray"
  133. # define COMPILER_VERSION_MAJOR DEC(_RELEASE)
  134. # define COMPILER_VERSION_MINOR DEC(_RELEASE_MINOR)
  136. #elif defined(__TI_COMPILER_VERSION__)
  137. # define COMPILER_ID "TI"
  138. /* __TI_COMPILER_VERSION__ = VVVRRRPPP */
  139. # define COMPILER_VERSION_MAJOR DEC(__TI_COMPILER_VERSION__/1000000)
  140. # define COMPILER_VERSION_MINOR DEC(__TI_COMPILER_VERSION__/1000 % 1000)
  141. # define COMPILER_VERSION_PATCH DEC(__TI_COMPILER_VERSION__ % 1000)
  143. #elif defined(__FUJITSU) || defined(__FCC_VERSION) || defined(__fcc_version)
  144. # define COMPILER_ID "Fujitsu"
  146. #elif defined(__TINYC__)
  147. # define COMPILER_ID "TinyCC"
  149. #elif defined(__SCO_VERSION__)
  150. # define COMPILER_ID "SCO"
  152. #elif defined(__clang__) && defined(__apple_build_version__)
  153. # define COMPILER_ID "AppleClang"
  154. # if defined(_MSC_VER)
  155. # define SIMULATE_ID "MSVC"
  156. # endif
  157. # define COMPILER_VERSION_MAJOR DEC(__clang_major__)
  158. # define COMPILER_VERSION_MINOR DEC(__clang_minor__)
  159. # define COMPILER_VERSION_PATCH DEC(__clang_patchlevel__)
  160. # if defined(_MSC_VER)
  161. /* _MSC_VER = VVRR */
  162. # define SIMULATE_VERSION_MAJOR DEC(_MSC_VER / 100)
  163. # define SIMULATE_VERSION_MINOR DEC(_MSC_VER % 100)
  164. # endif
  165. # define COMPILER_VERSION_TWEAK DEC(__apple_build_version__)
  167. #elif defined(__clang__)
  168. # define COMPILER_ID "Clang"
  169. # if defined(_MSC_VER)
  170. # define SIMULATE_ID "MSVC"
  171. # endif
  172. # define COMPILER_VERSION_MAJOR DEC(__clang_major__)
  173. # define COMPILER_VERSION_MINOR DEC(__clang_minor__)
  174. # define COMPILER_VERSION_PATCH DEC(__clang_patchlevel__)
  175. # if defined(_MSC_VER)
  176. /* _MSC_VER = VVRR */
  177. # define SIMULATE_VERSION_MAJOR DEC(_MSC_VER / 100)
  178. # define SIMULATE_VERSION_MINOR DEC(_MSC_VER % 100)
  179. # endif
  181. #elif defined(__GNUC__)
  182. # define COMPILER_ID "GNU"
  183. # define COMPILER_VERSION_MAJOR DEC(__GNUC__)
  184. # define COMPILER_VERSION_MINOR DEC(__GNUC_MINOR__)
  185. # if defined(__GNUC_PATCHLEVEL__)
  186. # define COMPILER_VERSION_PATCH DEC(__GNUC_PATCHLEVEL__)
  187. # endif
  189. #elif defined(_MSC_VER)
  190. # define COMPILER_ID "MSVC"
  191. /* _MSC_VER = VVRR */
  192. # define COMPILER_VERSION_MAJOR DEC(_MSC_VER / 100)
  193. # define COMPILER_VERSION_MINOR DEC(_MSC_VER % 100)
  194. # if defined(_MSC_FULL_VER)
  195. # if _MSC_VER >= 1400
  196. /* _MSC_FULL_VER = VVRRPPPPP */
  197. # define COMPILER_VERSION_PATCH DEC(_MSC_FULL_VER % 100000)
  198. # else
  199. /* _MSC_FULL_VER = VVRRPPPP */
  200. # define COMPILER_VERSION_PATCH DEC(_MSC_FULL_VER % 10000)
  201. # endif
  202. # endif
  203. # if defined(_MSC_BUILD)
  204. # define COMPILER_VERSION_TWEAK DEC(_MSC_BUILD)
  205. # endif
  207. #elif defined(__VISUALDSPVERSION__) || defined(__ADSPBLACKFIN__) || defined(__ADSPTS__) || defined(__ADSP21000__)
  208. # define COMPILER_ID "ADSP"
  209. #if defined(__VISUALDSPVERSION__)
  210. /* __VISUALDSPVERSION__ = 0xVVRRPP00 */
  211. # define COMPILER_VERSION_MAJOR HEX(__VISUALDSPVERSION__>>24)
  212. # define COMPILER_VERSION_MINOR HEX(__VISUALDSPVERSION__>>16 & 0xFF)
  213. # define COMPILER_VERSION_PATCH HEX(__VISUALDSPVERSION__>>8 & 0xFF)
  214. #endif
  216. #elif defined(__IAR_SYSTEMS_ICC__ ) || defined(__IAR_SYSTEMS_ICC)
  217. # define COMPILER_ID "IAR"
  219. #elif defined(SDCC)
  220. # define COMPILER_ID "SDCC"
  221. /* SDCC = VRP */
  222. # define COMPILER_VERSION_MAJOR DEC(SDCC/100)
  223. # define COMPILER_VERSION_MINOR DEC(SDCC/10 % 10)
  224. # define COMPILER_VERSION_PATCH DEC(SDCC % 10)
  226. #elif defined(_SGI_COMPILER_VERSION) || defined(_COMPILER_VERSION)
  227. # define COMPILER_ID "MIPSpro"
  228. # if defined(_SGI_COMPILER_VERSION)
  229. /* _SGI_COMPILER_VERSION = VRP */
  230. # define COMPILER_VERSION_MAJOR DEC(_SGI_COMPILER_VERSION/100)
  231. # define COMPILER_VERSION_MINOR DEC(_SGI_COMPILER_VERSION/10 % 10)
  232. # define COMPILER_VERSION_PATCH DEC(_SGI_COMPILER_VERSION % 10)
  233. # else
  234. /* _COMPILER_VERSION = VRP */
  235. # define COMPILER_VERSION_MAJOR DEC(_COMPILER_VERSION/100)
  236. # define COMPILER_VERSION_MINOR DEC(_COMPILER_VERSION/10 % 10)
  237. # define COMPILER_VERSION_PATCH DEC(_COMPILER_VERSION % 10)
  238. # endif
  241. /* These compilers are either not known or too old to define an
  242. identification macro. Try to identify the platform and guess that
  243. it is the native compiler. */
  244. #elif defined(__sgi)
  245. # define COMPILER_ID "MIPSpro"
  247. #elif defined(__hpux) || defined(__hpua)
  248. # define COMPILER_ID "HP"
  250. #else /* unknown compiler */
  251. # define COMPILER_ID ""
  252. #endif
  254. /* Construct the string literal in pieces to prevent the source from
  255. getting matched. Store it in a pointer rather than an array
  256. because some compilers will just produce instructions to fill the
  257. array rather than assigning a pointer to a static array. */
  258. char const* info_compiler = "INFO" ":" "compiler[" COMPILER_ID "]";
  259. #ifdef SIMULATE_ID
  260. char const* info_simulate = "INFO" ":" "simulate[" SIMULATE_ID "]";
  261. #endif
  263. #ifdef __QNXNTO__
  264. char const* qnxnto = "INFO" ":" "qnxnto[]";
  265. #endif
  267. #define STRINGIFY_HELPER(X) #X
  268. #define STRINGIFY(X) STRINGIFY_HELPER(X)
  270. /* Identify known platforms by name. */
  271. #if defined(__linux) || defined(__linux__) || defined(linux)
  272. # define PLATFORM_ID "Linux"
  274. #elif defined(__CYGWIN__)
  275. # define PLATFORM_ID "Cygwin"
  277. #elif defined(__MINGW32__)
  278. # define PLATFORM_ID "MinGW"
  280. #elif defined(__APPLE__)
  281. # define PLATFORM_ID "Darwin"
  283. #elif defined(_WIN32) || defined(__WIN32__) || defined(WIN32)
  284. # define PLATFORM_ID "Windows"
  286. #elif defined(__FreeBSD__) || defined(__FreeBSD)
  287. # define PLATFORM_ID "FreeBSD"
  289. #elif defined(__NetBSD__) || defined(__NetBSD)
  290. # define PLATFORM_ID "NetBSD"
  292. #elif defined(__OpenBSD__) || defined(__OPENBSD)
  293. # define PLATFORM_ID "OpenBSD"
  295. #elif defined(__sun) || defined(sun)
  296. # define PLATFORM_ID "SunOS"
  298. #elif defined(_AIX) || defined(__AIX) || defined(__AIX__) || defined(__aix) || defined(__aix__)
  299. # define PLATFORM_ID "AIX"
  301. #elif defined(__sgi) || defined(__sgi__) || defined(_SGI)
  302. # define PLATFORM_ID "IRIX"
  304. #elif defined(__hpux) || defined(__hpux__)
  305. # define PLATFORM_ID "HP-UX"
  307. #elif defined(__HAIKU__)
  308. # define PLATFORM_ID "Haiku"
  310. #elif defined(__BeOS) || defined(__BEOS__) || defined(_BEOS)
  311. # define PLATFORM_ID "BeOS"
  313. #elif defined(__QNX__) || defined(__QNXNTO__)
  314. # define PLATFORM_ID "QNX"
  316. #elif defined(__tru64) || defined(_tru64) || defined(__TRU64__)
  317. # define PLATFORM_ID "Tru64"
  319. #elif defined(__riscos) || defined(__riscos__)
  320. # define PLATFORM_ID "RISCos"
  322. #elif defined(__sinix) || defined(__sinix__) || defined(__SINIX__)
  323. # define PLATFORM_ID "SINIX"
  325. #elif defined(__UNIX_SV__)
  326. # define PLATFORM_ID "UNIX_SV"
  328. #elif defined(__bsdos__)
  329. # define PLATFORM_ID "BSDOS"
  331. #elif defined(_MPRAS) || defined(MPRAS)
  332. # define PLATFORM_ID "MP-RAS"
  334. #elif defined(__osf) || defined(__osf__)
  335. # define PLATFORM_ID "OSF1"
  337. #elif defined(_SCO_SV) || defined(SCO_SV) || defined(sco_sv)
  338. # define PLATFORM_ID "SCO_SV"
  340. #elif defined(__ultrix) || defined(__ultrix__) || defined(_ULTRIX)
  341. # define PLATFORM_ID "ULTRIX"
  343. #elif defined(__XENIX__) || defined(_XENIX) || defined(XENIX)
  344. # define PLATFORM_ID "Xenix"
  346. #elif defined(__WATCOMC__)
  347. # if defined(__LINUX__)
  348. # define PLATFORM_ID "Linux"
  350. # elif defined(__DOS__)
  351. # define PLATFORM_ID "DOS"
  353. # elif defined(__OS2__)
  354. # define PLATFORM_ID "OS2"
  356. # elif defined(__WINDOWS__)
  357. # define PLATFORM_ID "Windows3x"
  359. # else /* unknown platform */
  360. # define PLATFORM_ID ""
  361. # endif
  363. #else /* unknown platform */
  364. # define PLATFORM_ID ""
  366. #endif
  368. /* For windows compilers MSVC and Intel we can determine
  369. the architecture of the compiler being used. This is because
  370. the compilers do not have flags that can change the architecture,
  371. but rather depend on which compiler is being used
  372. */
  373. #if defined(_WIN32) && defined(_MSC_VER)
  374. # if defined(_M_IA64)
  375. # define ARCHITECTURE_ID "IA64"
  377. # elif defined(_M_X64) || defined(_M_AMD64)
  378. # define ARCHITECTURE_ID "x64"
  380. # elif defined(_M_IX86)
  381. # define ARCHITECTURE_ID "X86"
  383. # elif defined(_M_ARM)
  384. # if _M_ARM == 4
  385. # define ARCHITECTURE_ID "ARMV4I"
  386. # elif _M_ARM == 5
  387. # define ARCHITECTURE_ID "ARMV5I"
  388. # else
  389. # define ARCHITECTURE_ID "ARMV" STRINGIFY(_M_ARM)
  390. # endif
  392. # elif defined(_M_MIPS)
  393. # define ARCHITECTURE_ID "MIPS"
  395. # elif defined(_M_SH)
  396. # define ARCHITECTURE_ID "SHx"
  398. # else /* unknown architecture */
  399. # define ARCHITECTURE_ID ""
  400. # endif
  402. #elif defined(__WATCOMC__)
  403. # if defined(_M_I86)
  404. # define ARCHITECTURE_ID "I86"
  406. # elif defined(_M_IX86)
  407. # define ARCHITECTURE_ID "X86"
  409. # else /* unknown architecture */
  410. # define ARCHITECTURE_ID ""
  411. # endif
  413. #else
  414. # define ARCHITECTURE_ID ""
  415. #endif
  417. /* Convert integer to decimal digit literals. */
  418. #define DEC(n) \
  419. ('0' + (((n) / 10000000)%10)), \
  420. ('0' + (((n) / 1000000)%10)), \
  421. ('0' + (((n) / 100000)%10)), \
  422. ('0' + (((n) / 10000)%10)), \
  423. ('0' + (((n) / 1000)%10)), \
  424. ('0' + (((n) / 100)%10)), \
  425. ('0' + (((n) / 10)%10)), \
  426. ('0' + ((n) % 10))
  428. /* Convert integer to hex digit literals. */
  429. #define HEX(n) \
  430. ('0' + ((n)>>28 & 0xF)), \
  431. ('0' + ((n)>>24 & 0xF)), \
  432. ('0' + ((n)>>20 & 0xF)), \
  433. ('0' + ((n)>>16 & 0xF)), \
  434. ('0' + ((n)>>12 & 0xF)), \
  435. ('0' + ((n)>>8 & 0xF)), \
  436. ('0' + ((n)>>4 & 0xF)), \
  437. ('0' + ((n) & 0xF))
  439. /* Construct a string literal encoding the version number components. */
  440. #ifdef COMPILER_VERSION_MAJOR
  441. char const info_version[] = {
  442. 'I', 'N', 'F', 'O', ':',
  443. 'c','o','m','p','i','l','e','r','_','v','e','r','s','i','o','n','[',
  444. COMPILER_VERSION_MAJOR,
  445. # ifdef COMPILER_VERSION_MINOR
  446. '.', COMPILER_VERSION_MINOR,
  447. # ifdef COMPILER_VERSION_PATCH
  448. '.', COMPILER_VERSION_PATCH,
  449. # ifdef COMPILER_VERSION_TWEAK
  450. '.', COMPILER_VERSION_TWEAK,
  451. # endif
  452. # endif
  453. # endif
  454. ']','\0'};
  455. #endif
  457. /* Construct a string literal encoding the version number components. */
  458. #ifdef SIMULATE_VERSION_MAJOR
  459. char const info_simulate_version[] = {
  460. 'I', 'N', 'F', 'O', ':',
  461. 's','i','m','u','l','a','t','e','_','v','e','r','s','i','o','n','[',
  462. SIMULATE_VERSION_MAJOR,
  463. # ifdef SIMULATE_VERSION_MINOR
  464. '.', SIMULATE_VERSION_MINOR,
  465. # ifdef SIMULATE_VERSION_PATCH
  466. '.', SIMULATE_VERSION_PATCH,
  467. # ifdef SIMULATE_VERSION_TWEAK
  468. '.', SIMULATE_VERSION_TWEAK,
  469. # endif
  470. # endif
  471. # endif
  472. ']','\0'};
  473. #endif
  475. /* Construct the string literal in pieces to prevent the source from
  476. getting matched. Store it in a pointer rather than an array
  477. because some compilers will just produce instructions to fill the
  478. array rather than assigning a pointer to a static array. */
  479. char const* info_platform = "INFO" ":" "platform[" PLATFORM_ID "]";
  480. char const* info_arch = "INFO" ":" "arch[" ARCHITECTURE_ID "]";
  485. /*--------------------------------------------------------------------------*/
  487. #ifdef ID_VOID_MAIN
  488. void main() {}
  489. #else
  490. int main(int argc, char* argv[])
  491. {
  492. int require = 0;
  493. require += info_compiler[argc];
  494. require += info_platform[argc];
  495. require += info_arch[argc];
  496. #ifdef COMPILER_VERSION_MAJOR
  497. require += info_version[argc];
  498. #endif
  499. #ifdef SIMULATE_ID
  500. require += info_simulate[argc];
  501. #endif
  502. #ifdef SIMULATE_VERSION_MAJOR
  503. require += info_simulate_version[argc];
  504. #endif
  505. (void)argv;
  506. return require;
  507. }
  508. #endif

CMakeCCompilerId.c at commit 3b8f2a6, under LGPL-2.1 · at the source

Overview

Authors: Kayhan Alvandipour1, Amélie Weiss1, Mona Mathews2, Brenda Besemer3, Michaela Segschneider2,3, Zahra Hanifehlou1, Christian Felski3, Michael Peitz2, Arnaud Ogier1, Peter Sommer1, Oliver Brüstle2,3, Johannes H. Wilbertz1
ORCID iDs: Kayhan Alvandipour, Mona Mathews, Brenda Besemer, Zahra Hanifehlou, Michael Peitz, Arnaud Ogier, Peter Sommer, Oliver Brüstle, Johannes H. Wilbertz
  1. Ksilink, Strasbourg, France
  2. LIFE & BRAIN GmbH, Cellomics Unit, Bonn, Germany
  3. Institute of Reconstructive Neurobiology, University of Bonn Medical Faculty & University Hospital Bonn, Bonn, Germany
Institutions: Life & Brain (Germany) (Germany); University of Bonn (Germany); University Hospital Bonn (Germany)
Journal: iScience, volume 29, issue 7, article 116575
Dates: received 7 October 2025; accepted 10 June 2026; published online 27 June 2026
Type: Research article · Language: English
License: CC BY-NC-ND
Identifiers: DOI 10.1016/j.isci.2026.116575 · PMID 42491669 · PMCID PMC13378380 · OpenAlex W4414283878
Open access: gold, a free copy (OpenAlex)
Preprint: doi:10.1101/2025.09.12.675829
Status: code verified
Categories: human (organism), cellular / molecular (subfield)
Methods: Statistics, Smoothing, state filtering, decompositions, Machine learning, Preprocessing, Connectivity
Keywords: microglia heterogeneity, high-content imaging, phenotypic profiling, deep learning, Gaussian mixture model, GMM
Topic: Digital Imaging for Blood Diseases (Computer Vision and Pattern Recognition, Computer Science), according to OpenAlex
Funding: Federal Ministry for Economic Affairs and Energy (KK5450601SK2); LIFE; BRAIN; Bpifrance (DOS0193862/00)
Citations: not cited yet (Europe PMC); 52 references in the paper

Abstract

The abstract is not reproduced here: the paper's license (CC BY-NC-ND) does not allow it. Read it in the paper, at the publisher or on Europe PMC.

Repository

Its files are read in the Code ↔ Paper reader above.

Ksilink/PhenoLink

License: LGPL-2.1
State: the link answers, verified on 27 September 2026
Evidence: files inventoried
Commit: 3b8f2a62dbb2c2156f0f8f62db468ded906e8a07, 4 August 2026
Languages: C++ (97), C/C++ (88), Python (9), C (2)
Size: 397 files, 196 scripts
Software Heritage: not archived
Found in: the text, “PhenoLink feature extraction”
Holds: README, license file, documentation
Not found: CITATION.cff, environment file, tests, continuous integration
Tools: NumPy (2 files), pandas (1 file), scikit-image (1 file)
Availability: 1 check, the latest on 27 September 2026: the link answers
  • 27 September 2026: the link answers
198 files
At the source: github.com/Ksilink/PhenoLink

The paper's code and data availability statement is in the Data section.

Tracing map

Proposed by the machine: these links were found in the paper and verified at the source, without human review. The map will receive a Zenodo DOI once one of the paper's authors has validated it with their ORCID.

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  • 1 repository of the authors' code, each at its verified commit, with its license and how the link was found in the paper;
  • 196 scripts, each with its path and the digest of its content;
  • no match between paragraphs and code yet;
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Data

Datasets cited

Code and data availability statement

The paper has a code and data availability statement. Its license (CC BY-NC-ND) does not allow reproducing it here; in short, from what the harvester recognized in it:

Read it in the paper: doi.org/10.1016/j.isci.2026.116575.

Versions

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Version 2, 28 September 2026

  • Authors: added Mona Mathews (0000-0002-8617-2553); Zahra Hanifehlou (0000-0002-4414-3615); Arnaud Ogier (0000-0003-3656-9816); Oliver Brüstle (0000-0002-1277-0980); Johannes H. Wilbertz (0000-0002-0002-6847); removed Mona Mathews; Zahra Hanifehlou; Arnaud Ogier; Oliver Brüstle; Johannes H. Wilbertz

Version 1, 27 September 2026: the first record

Recorded: type, language, journal, volume, issue, pages, dates, 12 authors, 6 keywords, 4 funders, 52 references.

Cite

This paper

Alvandipour, K., Weiss, A., Mathews, M., Besemer, B., Segschneider, M., Hanifehlou, Z., Felski, C., Peitz, M., Ogier, A., Sommer, P., Brüstle, O., & Wilbertz, J. H. (2026). Mapping human microglial morphological diversity via handcrafted and deep learning-derived image features. iScience, 29(7), 116575. https://doi.org/10.1016/j.isci.2026.116575

BibTeX

@article{alvandipour2026mapping,
author = {Alvandipour, Kayhan and Weiss, Amélie and Mathews, Mona and Besemer, Brenda and Segschneider, Michaela and Hanifehlou, Zahra and Felski, Christian and Peitz, Michael and Ogier, Arnaud and Sommer, Peter and Brüstle, Oliver and Wilbertz, Johannes H.},
title = {{Mapping human microglial morphological diversity via handcrafted and deep learning-derived image features}},
journal = {iScience},
year = {2026},
month = jun,
volume = {29},
number = {7},
pages = {116575},
publisher = {Elsevier},
issn = {2589-0042},
doi = {10.1016/j.isci.2026.116575},
url = {https://doi.org/10.1016/j.isci.2026.116575},
pmid = {42491669},
pmcid = {PMC13378380}
}

RIS

TY - JOUR
AU - Alvandipour, Kayhan
AU - Weiss, Amélie
AU - Mathews, Mona
AU - Besemer, Brenda
AU - Segschneider, Michaela
AU - Hanifehlou, Zahra
AU - Felski, Christian
AU - Peitz, Michael
AU - Ogier, Arnaud
AU - Sommer, Peter
AU - Brüstle, Oliver
AU - Wilbertz, Johannes H.
TI - Mapping human microglial morphological diversity via handcrafted and deep learning-derived image features
T2 - iScience
J2 - iScience
PY - 2026
DA - 2026/06/27
VL - 29
IS - 7
SP - 116575
SN - 2589-0042
PB - Elsevier
DO - 10.1016/j.isci.2026.116575
UR - https://doi.org/10.1016/j.isci.2026.116575
LA - en
ER -

CSL-JSON

{
"id": "10.1016/j.isci.2026.116575",
"type": "article-journal",
"title": "Mapping human microglial morphological diversity via handcrafted and deep learning-derived image features",
"container-title": "iScience",
"author": [
{
"family": "Alvandipour",
"given": "Kayhan"
},
{
"family": "Weiss",
"given": "Amélie"
},
{
"family": "Mathews",
"given": "Mona"
},
{
"family": "Besemer",
"given": "Brenda"
},
{
"family": "Segschneider",
"given": "Michaela"
},
{
"family": "Hanifehlou",
"given": "Zahra"
},
{
"family": "Felski",
"given": "Christian"
},
{
"family": "Peitz",
"given": "Michael"
},
{
"family": "Ogier",
"given": "Arnaud"
},
{
"family": "Sommer",
"given": "Peter"
},
{
"family": "Brüstle",
"given": "Oliver"
},
{
"family": "Wilbertz",
"given": "Johannes H."
}
],
"container-title-short": "iScience",
"volume": "29",
"issue": "7",
"page": "116575",
"DOI": "10.1016/j.isci.2026.116575",
"PMID": "42491669",
"PMCID": "PMC13378380",
"ISSN": "2589-0042",
"publisher": "Elsevier",
"URL": "https://doi.org/10.1016/j.isci.2026.116575",
"language": "en",
"issued": {
"date-parts": [
[
2026,
6,
27
]
]
}
}

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