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multiqc
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public |
Create aggregate bioinformatics analysis reports across many samples and tools
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2025-03-25 |
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woof-nf
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public |
No Summary
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2025-03-25 |
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tsvtools
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public |
Utilities for operating with tab-separated files: viewing, filtering, reordering
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2025-03-25 |
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ngs_utils
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public |
Python utilities for bioinformatics tools and pipelines
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2025-03-25 |
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oviraptor
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public |
Oncoviral integration in cancer whole genome data
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2025-03-25 |
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r-chord
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public |
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.
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2025-03-25 |
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r-nnlm
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public |
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.
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2025-03-25 |
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r-pebbles
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public |
Contains cancer genomics datasets for running tests and examples in the rock R package (https://github.com/pdiakumis/rock).
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2025-03-25 |
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versionpy
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public |
Small utility to track and bump the version of your python tool
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2025-03-25 |
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r-rock
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public |
Contains visualisation functions for bioinformatics work at UMCCR.
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2025-03-25 |
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r-signature.tools.lib
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public |
R package with useful functions for mutational signatures analysis.
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2025-03-25 |
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tsvfmt
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public |
Tab-separated file viewer for command line
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2025-03-25 |
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reference_data
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public |
Versioning of reference data used in UMCCR pipelines, and python API to access it
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2025-03-25 |
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r-woofr
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public |
Helper R Functions for woof (https://github.com/pdiakumis/woof).
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2025-03-25 |
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r-gpgr
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public |
Genomics Platform Group Reporting
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2025-03-25 |
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bed_annotation
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public |
Genome capture target coverage evaluation tool
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2025-03-25 |
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r-mutsigextractor
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public |
Extracts SNV, indel, DBS, and SV signatures from vcf files.
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2025-03-25 |
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vcf_stuff
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public |
Evaluating, filtering, comparing, and visualising variant calls
|
2025-03-25 |
