shahcompbio
by Shah Lab
shahlab.ca
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Packages
| Name | Latest Version | Summary | Updated | License |
|---|
| bioconductor-hmmcopy-single-cell | 1.32.0 | Corrects GC and mappability biases for readcounts (i.e. coverage) in non-overlapping windows of fixed length for single whole genome samples, yielding a rough estimate of copy number for furthur analysis. Designed for rapid correction of high coverage whole genome tumour and normal samples. | Mar 25, 2025 | — |
| bioconductor-titan | 1.10.0 | Corrects GC and mappability biases for readcounts (i.e. coverage) in non-overlapping windows of fixed length for single whole genome samples, yielding a rough estimate of copy number for furthur analysis. Designed for rapid correction of high coverage whole genome tumour and normal samples. | Mar 25, 2025 | — |
| biowrappers | 0.1.1 | — | Mar 25, 2025 | — |
| cell_cycle_classifier | 0.0.2 | Cell cycle classifier for DLP+ data. | Mar 25, 2025 | — |
| circos_utils | 1.10.0 | Utility scripts for circos plotting. | Mar 25, 2025 | — |
| corrupt-tree | 0.0.1 | tree for single cell dna | Mar 25, 2025 | — |
| destruct_utils | 1.10.0 | Utility scripts for destruct. | Mar 25, 2025 | — |
| lumpy-sv | 0.2.13 | A general probabilistic framework for structural variant discovery | Mar 25, 2025 | GPLv3 |
| museq | 4.3.10 | Software for somatic SNV detection using next generation sequencing (NGS) data. | Mar 25, 2025 | — |
| museqportrait | 0.99.13 | — | Mar 25, 2025 | — |
| oncokb-annotator | 2.3.3 | — | Mar 25, 2025 | — |
| pseudo_bulk_qc_html_report | 0.0.1 | — | Mar 25, 2025 | — |
| pypdf2 | v1.26.0 | pdf toolkit for python | Mar 25, 2025 | GPLv3 |
| pypeliner | 0.6.2 | Library for creating informatic workflows | Mar 25, 2025 | MIT |
| single_cell_pipeline_align | 0.6.46 | Bioinformatics pipeline for single cell analysis | Mar 25, 2025 | — |
| single_cell_pipeline_annotation | 0.6.46 | Bioinformatics pipeline for single cell analysis | Mar 25, 2025 | — |
| single_cell_pipeline_hmmcopy | 0.6.46 | Bioinformatics pipeline for single cell analysis | Mar 25, 2025 | — |
| single_cell_pipeline_hmmcopy_emilia | 0.6.34 | Bioinformatics pipeline for single cell analysis | Mar 25, 2025 | — |
| single_cell_pseudo_bulk_qc | 0.6.46 | — | Mar 25, 2025 | — |
| titan_wgs | 1.10.0 | Corrects GC and mappability biases for readcounts (i.e. coverage) in non-overlapping windows of fixed length for single whole genome samples, yielding a rough estimate of copy number for furthur analysis. Designed for rapid correction of high coverage whole genome tumour and normal samples. | Mar 25, 2025 | — |
| titan_wgs_utils | 1.10.0 | Utility scripts for titan. | Mar 25, 2025 | — |
| vcf2maf_shahcompbio | 0.0.1 | vcf2maf conversion | Mar 25, 2025 | GPLv3 |
| wgs_qc_html | 0.0.1 | — | Mar 25, 2025 | — |