ShixiangWang / Variants2Neoantigen
A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)
☆29Updated 5 years ago
Alternatives and similar repositories for Variants2Neoantigen:
Users that are interested in Variants2Neoantigen are comparing it to the libraries listed below
- An R package to plot maps of clone distributions in somatic evolution☆17Updated last year
- Filtering of PDX samples for mouse derived reads☆27Updated 2 years ago
- ☆40Updated 6 years ago
- R package to calculate the Aneuploidy Score from Chromosome Arm-level SCNAs/Aneuploidies (CAAs) as outlined and expanded by Shukla et al.…☆16Updated 3 years ago
- ☆29Updated 6 years ago
- QBRC Neoantigen calling pipeline with CSiN calculation embedded☆24Updated 2 years ago
- MAnorm2 for Normalizing and Comparing ChIP-seq Samples☆32Updated 2 years ago
- TIGS (Tumor Immunogenicity Score) project https://doi.org/10.7554/eLife.49020☆31Updated 3 years ago
- Machine learning algorithm to predict biological pathway relationships based on functional genomics networks☆19Updated 6 years ago
- Main repository for Drews et al. (Nature, 2022)☆39Updated last year
- Package for calculation of Homologous Recombination Deficiency☆13Updated 4 years ago
- Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.☆16Updated 3 years ago
- Model-based subclonal deconvolution from bulk sequencing.☆33Updated 2 weeks ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆43Updated 3 years ago
- A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations☆35Updated 2 years ago
- knowledge-based genotyping of cancer hotspots from the tumor BAM files☆20Updated 3 years ago
- workshop website on readthedocs☆19Updated last month
- ☆24Updated last year
- Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers☆15Updated 6 years ago
- Conveniently perform ASCAT copy-number analysis from Tumor-Normal or Tumor only BAM files in R☆11Updated 3 years ago
- CNV analysis workflow code for the manuscript☆13Updated 4 years ago
- ☆14Updated 2 years ago
- This repo contains the code necessary to reproduce the clusters found in "The Immune Landscape of Cancer".☆19Updated 5 years ago
- MutSig2CV from Lawrence et al. 2014☆30Updated 4 years ago
- Bioconductor package esATAC: an Easy-to-use Systematic pipeline for ATAC-seq data analysis☆23Updated 2 years ago
- cDriver R package for finding candidate driver genes in cancers☆18Updated 7 years ago
- Repository containing all code for secondary analysis in the manuscript "On the design of CRISPR-based single cell molecular screens", Hi…☆26Updated 2 years ago
- RNA editing tests☆16Updated 4 years ago
- High-intensity sequencing reveals the sources of plasma circulating cell-free DNA variants☆21Updated 4 years ago
- Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.☆28Updated 3 years ago