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Dependencies
20
Software Dependencies (Direct)
2
Software Dependencies (Transitive)
1,464
Software Mentioned in Papers
3,111
Software in Cited Papers
1,551
Declared Dependencies
From manifests
575
Discovered (Hidden)
Symbol + wrapper analysis
109
System Libraries
0
With Known Vulns
None detected
What Software Does This Research Build On?
Via Cited DOIs (depth 1)
Repos whose canonical DOI paper is directly cited by seed papers.
Via Reference Chain (depth 2)
Repos found one level deeper in citation chains.
| Repository | Ref. Papers ▼ |
|---|---|
| salilab/imp | 7 |
| cornerstonejs/cornerstone3d | 1 |
Software Mentions in Seed Papers
| Software | Papers ▼ | Mapped |
|---|---|---|
| linux | 22 | unmapped |
| python | 20 | mapped |
| github | 20 | mapped |
| matlab | 16 | unmapped |
| code | 16 | unmapped |
| windows | 16 | unmapped |
| scripts | 16 | unmapped |
| script | 13 | unmapped |
| r | 12 | unmapped |
| matplotlib | 10 | mapped |
| docker | 9 | mapped |
| iq-tree | 9 | unmapped |
| scipy | 8 | mapped |
| java | 8 | unmapped |
| numpy | 8 | mapped |
| macos | 7 | unmapped |
| library | 7 | mapped |
| scikit-learn | 7 | mapped |
| imagej | 7 | mapped |
| phyml | 6 | unmapped |
What Software Do Referenced Papers Use?
Software mentioned in papers that seed papers reference.
| Software | Ref. Papers ▼ | Linked |
|---|---|---|
| python | 36 | linked |
| linux | 35 | unlinked |
| code | 34 | unlinked |
| scripts | 32 | unlinked |
| r | 27 | unlinked |
| windows | 26 | unlinked |
| github | 25 | linked |
| matlab | 24 | unlinked |
| script | 22 | unlinked |
| bioconductor | 21 | unlinked |
| numpy | 17 | linked |
| blast | 16 | unlinked |
| scipy | 16 | linked |
| matplotlib | 15 | linked |
| seurat | 15 | unlinked |
| ensembl | 15 | unlinked |
| c + + | 15 | unlinked |
| scikit-learn | 14 | linked |
| imagej | 14 | linked |
| java | 13 | unlinked |
Ecosystem & Depth
Ecosystem Distribution
pypi
2.1K(48%)
conda
1.1K(25%)
actions
1.0K(24%)
npm
84(2%)
docker
21(0%)
maven
8(0%)
Depth Distribution
Direct (layer 1)
1.6K(31%)
Transitive (layer 2)
1.5K(31%)
Transitive (layer 3)
1.4K(28%)
Deep (layer 4+)
463(9%)
Unknown
32(1%)
Dependency Types & Detection
Dependency Types
runtime
4.8K(97%)
dev
63(1%)
test
63(1%)
build
21(0%)
Detection Methods
manifest_parsing
4.4K(88%)
symbol_analysis
575(12%)
Languages
Python
43(80%)
C++
5(9%)
Cython
1(2%)
Scala
1(2%)
DIGITAL Command Language
1(2%)
C
1(2%)
SWIG
1(2%)
Jupyter Notebook
1(2%)
Licenses
Unknown
203
apache-2.0
19
bsd-3-clause
13
other
11
mit
9
unlicense
1
mpl-2.0
1
4,398 declared, 575 discovered
4398
Declared (4398)Discovered (575)
Wrapper-Detected Pairs
Language packages that wrap underlying system libraries.
| Package | Ecosystem | System Library | Confidence ▼ |
|---|---|---|---|
| tyba-cvxopt | pypi | amdhip | 100% |
| cupy-rocm-7-0 | pypi | amdhip | 100% |
| cupy-rocm-4-3 | pypi | amdhip | 100% |
| cupy-rocm-4-0 | pypi | amdhip | 100% |
| cvxopt | pypi | amdhip | 100% |
| cupy-rocm-5-0 | pypi | amdhip | 100% |
| cupy-rocm-4-2 | pypi | amdhip | 100% |
| pyarrow-cramjam | pypi | arrow_acero | 100% |
| pyarrow | pypi | arrow_acero | 100% |
| pyarrow | pypi | arrow_compute | 100% |
| popperrow | pypi | arrow_cuda | 100% |
| pyarrow-cramjam | pypi | arrow_dataset | 100% |
| pyarrow | pypi | arrow_dataset | 100% |
| pyarrow-cramjam | pypi | arrow_flight | 100% |
| pyarrow | pypi | arrow_flight | 100% |
| pyarrow | pypi | arrow_python | 100% |
| pyarrow-cramjam | pypi | arrow_python | 100% |
| popperrow | pypi | arrow_python | 100% |
| pyarrow | pypi | arrow_substrait | 100% |
| pyarrow-cramjam | pypi | arrow_substrait | 100% |
Symbol-Analysis Discoveries
Undeclared dependencies found via binary/symbol analysis.
| Target | Type | Confidence ▼ | Sources |
|---|---|---|---|
| glibc(runtime) | library | 100% | 66 |
| gcc(runtime) | library | 100% | 61 |
| libstdcxx(runtime) | library | 100% | 58 |
| openblas(linear_algebra) | library | 100% | 28 |
| cufft(gpu) | library | 100% | 18 |
| curand(gpu) | library | 100% | 18 |
| cuda(gpu) | library | 100% | 18 |
| nccl(gpu) | library | 100% | 18 |
| nvrtc(gpu) | library | 100% | 18 |
| cusparse(gpu) | library | 100% | 18 |
| cusolver(gpu) | library | 100% | 18 |
| openmp(runtime) | library | 100% | 17 |
| cudnn(gpu) | library | 100% | 16 |
| cutensor(gpu) | library | 100% | 13 |
| nvToolsExt(gpu) | library | 100% | 12 |
| amdhip(gpu) | library | 100% | 7 |
| tbb(threading) | library | 100% | 6 |
| gfortran(runtime) | library | 100% | 6 |
| rccl(gpu) | library | 100% | 5 |
| hiprand(gpu) | library | 100% | 5 |
Transitive Chain Depth
1,556
Direct (layer 1)
1,534
Transitive (layer 2)
1,388
Transitive (layer 3)
463
Deep (layer 4+)
32
Unknown
Security Advisories
No security advisories found for portfolio dependencies.
Package Health
Health Score Distribution
Not Scored
20(100%)
System Library Health
| Name | Category | Health | Funded | Deps ▼ |
|---|---|---|---|---|
| glibc | runtime | - | unfunded | 74 |
| gcc | runtime | - | unfunded | 69 |
| libstdcxx | runtime | - | unfunded | 66 |
| openblas | linear_algebra | - | unfunded | 38 |
| openmp | runtime | - | unfunded | 19 |
| cusolver | gpu | - | unfunded | 18 |
| nvrtc | gpu | - | unfunded | 18 |
| cusparse | gpu | - | unfunded | 18 |
| cufft | gpu | - | unfunded | 18 |
| curand | gpu | - | unfunded | 18 |
| nccl | gpu | - | unfunded | 18 |
| cuda | gpu | - | unfunded | 18 |
| cudnn | gpu | - | unfunded | 16 |
| zlib | compression | - | unfunded | 15 |
| gfortran | runtime | - | unfunded | 14 |
| cutensor | gpu | - | unfunded | 13 |
| nvToolsExt | gpu | - | unfunded | 12 |
| quadmath | math | - | unfunded | 11 |
| amdhip | gpu | - | unfunded | 7 |
| tbb | threading | - | unfunded | 6 |
Most widely used packages across portfolio repositories.
| Package | Ecosystem | Type | Detection | Health | Advisories | Used By ▼ |
|---|---|---|---|---|---|---|
| actions/checkout | actions | direct | declared | - | 0 | 35 repos |
| actions/setup-python | actions | direct | declared | - | 0 | 31 repos |
| sphinx | pypi | direct | declared | - | 0 | 28 repos |
| actions/upload-artifact | actions | direct | declared | - | 0 | 27 repos |
| actions/download-artifact | actions | direct | declared | - | 0 | 22 repos |
| codecov/codecov-action | actions | direct | declared | - | 0 | 22 repos |
| docker/setup-qemu-action | actions | direct | declared | - | 0 | 22 repos |
| wheel | pypi | direct | declared | - | 0 | 22 repos |
| sphinx-copybutton | pypi | direct | declared | - | 0 | 21 repos |
| actions/cache | actions | direct | declared | - | 0 | 20 repos |
| actions/stale | actions | direct | declared | - | 0 | 20 repos |
| packaging | pypi | direct | declared | - | 0 | 20 repos |
| pillow | pypi | direct | declared | - | 0 | 20 repos |
| pytest | pypi | direct | declared | - | 0 | 20 repos |
| sphinxcontrib-svg2pdfconverter | pypi | direct | declared | - | 0 | 20 repos |
| twine | pypi | direct | declared | - | 0 | 20 repos |
| urllib3 | pypi | direct | declared | - | 0 | 20 repos |
| matplotlib | pypi | direct | declared | - | 0 | 19 repos |
| numpy | pypi | direct | declared | - | 0 | 19 repos |
| pandas | pypi | direct | declared | - | 0 | 19 repos |
Computed 4/10/2026, 12:30:01 AM across 258 repositories