umccr
by UMCCR (Organization)
Most Popular
Downloads
Usage Instructions
To install packages from this channel, use the channel temporarily with conda or add it to your .condarc file for configured ongoing access. Learn more
- Temporary
- Configured
Packages
| Name | Latest Version | Summary | Updated | License |
|---|
| r-tidywigits | 0.0.7 | WiGiTS workflow tidying | Feb 26, 2026 | MIT |
| r-nemo | 0.0.3 | Tidy and explore outputs from bioinformatic pipelines | Mar 15, 2026 | MIT |
| r-rportal | 0.1.6 | UMCCR data portal R functionality | Feb 26, 2026 | MIT |
| r-ulid | 0.4.0 | Generate Universally Unique Lexicographically Sortable Identifiers | Feb 4, 2026 | MIT |
| r-gpgr | 2.2.12 | Genomics Platform Group Reporting | Mar 19, 2026 | MIT + file LICENSE |
| vcfanno | 0.3.5 | annotate a VCF with other VCFs/BEDs/tabixed files | Mar 25, 2025 | MIT |
| vcf_stuff | 0.6.4 | Evaluating, filtering, comparing, and visualising variant calls | Mar 25, 2025 | GPLv3 |
| r-nnlm | 0.4.4 | This is a package for Non-Negative Linear Models (NNLM). It implements fast sequential coordinate descent algorithms for non-negative linear regression and non-negative matrix factorization (NMF). It supports mean square error and Kullback-Leibler divergence loss. Many other features are also implemented, including missing value imputation, domain knowledge integration, designable W and H matrices and multiple forms of regularizations. | Mar 25, 2025 | BSD_2_clause + file LICENSE |
| r-dracarys | 0.16.0 | DRAGEN workflow post-processing | Mar 25, 2025 | MIT |
| r-signature.tools.lib | 2.1.2 | R package with useful functions for mutational signatures analysis. | Mar 25, 2025 | see LICENCE file |
| r-chord | 2.03 | CHORD is a random forest model that uses the relative counts of somatic mutation contexts to predict homologous recombination deficiency (HRD). The primary contexts used by CHORD are deletions with flanking microhomology and 1-100kb structural duplications. Additionally, 1-100kb structural duplications are used to distinguish BRCA1-type HRD from BRCA2-type HRD. | Mar 25, 2025 | MIT |
| r-mutsigextractor | 1.29 | Extracts SNV, indel, DBS, and SV signatures from vcf files. | Mar 25, 2025 | GPL3 |
| reference_data | 1.0.11 | Versioning of reference data used in UMCCR pipelines, and python API to access it | Mar 25, 2025 | GPLv3 |
| r-sigrap | 0.2.0 | Wrappers for somatic mutation signature analysis tools | Mar 25, 2025 | MIT + file LICENSE |
| ngs_utils | 2.11.0 | Python utilities for bioinformatics tools and pipelines | Mar 25, 2025 | GPLv3 |
| versionpy | 0.4.11 | Small utility to track and bump the version of your python tool | Mar 25, 2025 | GPLv3 |
| r-rnasum | 2.0.3 | RNAseq-based cancer patient reports | Apr 15, 2026 | MIT + file LICENSE |
| r-woofr | 0.3.3 | Helper R Functions for woof (https://github.com/pdiakumis/woof). | Mar 25, 2025 | MIT + file LICENSE |
| woof | 0.2.1 | Compare genomic data from two sources | Mar 25, 2025 | GPL |
| bed_annotation | 1.1.6 | Genome capture target coverage evaluation tool | Mar 25, 2025 | GPLv3 |
| multiqc | 1.14+umccrise.0.0.14 | Create aggregate bioinformatics analysis reports across many samples and tools | Mar 25, 2025 | GNU General Public License v3 (GPLv3) |
| r-rnasum.data | 0.1.0 | Reference data for RNAsum | Mar 25, 2025 | MIT + file LICENSE |
| oviraptor | 1.3.2 | Oncoviral integration in cancer whole genome data | Mar 25, 2025 | GPLv3 |
| tsvtools | 0.2.0 | Utilities for operating with tab-separated files: viewing, filtering, reordering | Mar 25, 2025 | GPLv3 |
| pyvcf | 0.6.8+umccr.0.0.1 | Variant Call Format (VCF) parser for Python | Mar 25, 2025 | BSD/MIT |