ohsu-comp-bio
by ohsu-comp-bio (Organization)
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Packages
| Name | Latest Version | Summary | Updated | License |
|---|
| trident | 0.1.1 | — | May 20, 2025 | — |
| spatialge | 51f988b | — | May 16, 2025 | — |
| cellpose | 0.6 | anatomical segmentation algorithm | Mar 25, 2025 | BSD |
| squidpy | 1.1.0 | Squidpy - Spatial Single Cell Analysis in Python | Mar 25, 2025 | BSD-3-Clause License |
| opencv-python-headless | 4.5.1.48 | opencv python headless | Mar 25, 2025 | MIT |
| aracne-ap | 1.0.0 | — | Mar 25, 2025 | — |
| ashlar | 1.14.0 | Alignment by Simultaneous Harmonization of Layer/Adjacency Registration | Mar 25, 2025 | MIT |
| basic-illumination | 1.0.2 | ImageJ BaSiC shading correction for use with Ashlar. | Mar 25, 2025 | GNU General Public License |
| gatk4-python | 4.1.4.1 | Genome Analysis Toolkit (GATK4) | Mar 25, 2025 | BSD-3-Clause |
| naivestates | 1.6.1 | naivestates is a label-free, cluster-free tool for inferring cell types from quantified marker expression data | Mar 25, 2025 | MIT License |
| mxnet-cu102 | 1.7.0 | Apache MXNet is a deep learning framework designed for both efficiency and flexibility | Mar 25, 2025 | Apache License 2.0 |
| pytiff | 0.8.1 | A libtiff wrapper to read tiled tiff images | Mar 25, 2025 | BSD-3-Clause |
| scalpel | 0.5.4 | Sensitive detection of INDELs (INsertions and DELetions) | Mar 25, 2025 | MIT |
| bam-matcher | 3b4e0f7 | A simple tool for determining whether two BAM files contain reads sequenced from the same sample or patient by counting genotype matches at common SNPs. | Mar 25, 2025 | — |
| mxnet-mkl | 1.6.0 | Apache MXNet is a deep learning framework designed for both efficiency and flexibility | Mar 25, 2025 | Apache License 2.0 |
| scimap | 0.17.7 | Spatial Single-Cell Analysis Toolkit | Mar 25, 2025 | MIT |
| absolute | 1.0.6 | — | Mar 25, 2025 | — |
| msisensor | 0.2.0 | — | Mar 25, 2025 | — |
| epic | v1.1 | EPIC is a method to estimate the proportion of immune, stromal, endothelial and cancer or other cells from bulk gene expression data. | Mar 25, 2025 | — |
| tcr.aggregate.qc | 1.0.0 | — | Mar 25, 2025 | — |
| vitessce | 0.1.0a11 | Jupyter widget facilitating interactive visualization of spatial single-cell data with Vitessce | Mar 25, 2025 | — |
| r-tcr | 2.2.1.11 | Platform for the advanced analysis of T cell receptor and Immunoglobulin repertoires data and visualisation of the analysis results. | Mar 25, 2025 | Apache License 2.0 |
| intervalqc | 1.0.2 | — | Mar 25, 2025 | — |
| star-fusion | 1.11.1 | STAR-Fusion fusion variant caller. All dependencies required to run FusionInspector and FusionAnnotator are included. | Mar 25, 2025 | BSD-3-Clause |
| remove.spikes | 1.0.0 | — | Mar 25, 2025 | — |