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beagle

Voyager Backend

beyonce

:crown: :bee: :bar_chart: Beyoncé colour palettes for R

biometrics

Python package to calculate various sample contamination metrics.

cancer-type-prediction-from-tumour-dna

cnvkit

Copy number variant detection from targeted DNA sequencing

codecsuite

analysis pipeline for CODEC data

conpair

Concordance and contamination estimator for tumor-normal pairs

couplet

covfefe

Color palettes that will have covfefe of 45's blunders

cumc_risk_calculator

Shiny application to calculate risk score from model params

dnacopy

facets

Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.

facets-preview

Load, review and adjust facets fits

facets-suite

Tools for copy-number analysis using FACETS

facets2n

Algorithm to implement Fraction and Allelic Copy number Estimate from Tumor/normal Sequencing using unmatched normal sample(s) for log ratio calculations

igv

Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations

igv-reports

Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.

igv-snapshot-automator

Script to automatically create and run IGV snapshot batchscripts

impact-annotator_v2

Develop a knowledge-based approach using MSK-IMPACT data to build an automatic variant classifier

ipssm

Molecular International Prognostic Scoring System IPSS-M for Myelodysplastic Syndromes

iterativeerrorcorrection

Iterative error correction of long reads

joblib

Computing with Python functions.

keras_jupyter_notebooks

maftools

Summarize, Analyze and Visualize MAF files from TCGA or in house studies.

mergesvvcf

Python package and routines for merging SV VCF files

mirge

msisensor

microsatellite instability detection using tumor only or paired tumor-normal data

oncokb

oncokb-annotator

Annotates variants in MAF with OncoKB annotation.

oncoprintr

R package to generate onco prints of genomic and clinical data of patient cohorts