Convert VCF (Variant Call Format) into TCGA MAF (Mutation Annotation Format)
☆15Jul 15, 2016Updated 9 years ago
Alternatives and similar repositories for vcf2maf
Users that are interested in vcf2maf are comparing it to the libraries listed below
Sorting:
- MuSiCa - Mutational Signatures in Cancer☆23Dec 23, 2023Updated 2 years ago
- Codes to regenerate figures for mutagen paper☆12Apr 8, 2021Updated 4 years ago
- This repository contains the source code of the revised version of MutPanning. MutPanning is publicly available under the BSD3-Clause ope…☆13Nov 12, 2019Updated 6 years ago
- Single Cell Multiplexed Imaging Jupyter Voila Dashboard using CODEX Data☆17Jul 6, 2023Updated 2 years ago
- This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm…☆18Jan 31, 2024Updated 2 years ago
- A fast python class for reading 2-bit files (used by UCSC genome browser)☆14Oct 10, 2025Updated 4 months ago
- Identifying recurrent mutations in cancer☆39Mar 4, 2021Updated 4 years ago
- ☆15Jun 5, 2016Updated 9 years ago
- Pipelines for NGS data preprocessing by the Bock lab and friends☆22Aug 29, 2022Updated 3 years ago
- See: https://www.iscb.org/ismb2018/3511#am1☆18Sep 10, 2018Updated 7 years ago
- PharmGKB NGS Pipeline☆19Oct 2, 2018Updated 7 years ago
- Javascript library for visualizing genomics data with D3.☆19Jan 6, 2017Updated 9 years ago
- ☆29Sep 4, 2023Updated 2 years ago
- A long-read analysis toolbox for cancer and population genomics☆23Jul 1, 2025Updated 8 months ago
- TCGA data acquisition and processing for Project Cognoma☆22Apr 19, 2018Updated 7 years ago
- normalize, left-align, trim, validate and clean VCF files☆20Jul 22, 2015Updated 10 years ago
- ☆23Feb 16, 2026Updated 2 weeks ago
- Tumor-normal variant calling workflow using HiFi reads☆27Dec 12, 2025Updated 2 months ago
- A Java package for non-invasive cancer diagnosis using methylation profiles of cell-Free DNA.☆16Apr 2, 2019Updated 6 years ago
- using shallow neural network layer (embedding) to infer gene-gene/sample relationship from gene expression data☆21Nov 16, 2018Updated 7 years ago
- Variant Call Format (VCF) parser☆26Jan 21, 2026Updated last month
- An implementation of Nextflow.io with Language Workbench Technology. The project helps create computational pipelines that run with the N…☆22Aug 9, 2016Updated 9 years ago
- Code for the "Spatial genomics maps the structure, nature and evolution of cancer clones" paper☆27Nov 21, 2022Updated 3 years ago
- ☆28Feb 6, 2019Updated 7 years ago
- pathoscore evaluates variant pathogenicity tools and scores.☆22Mar 25, 2022Updated 3 years ago
- A single-cell RNA-seq pipeline☆26Apr 12, 2023Updated 2 years ago
- Pipeline for identifying viral integration and fusion mRNA reads from NGS data. Manuscript is currently in preparation.☆30Jul 13, 2021Updated 4 years ago
- Documents used for workshops on single cell analysis☆27Feb 5, 2017Updated 9 years ago
- Methods for mapping genomic data onto 3D protein structure.☆28May 17, 2022Updated 3 years ago
- Building classifiers using cancer transcriptomes across 33 different cancer-types☆122Apr 30, 2019Updated 6 years ago
- ☆69Jun 21, 2022Updated 3 years ago
- Cancer Genome Project Insertion/Deletion detection pipeline based around Pindel☆28May 14, 2025Updated 9 months ago
- Python and UNIX CLI utilities to simplify interaction with the NIH/NCI Genomics Data Commons☆31Oct 11, 2018Updated 7 years ago
- SNV expectation maximisation based mutation calling algorithm aimed at detecting somatic mutations in paired (tumour/normal) cancer sampl…☆63Apr 24, 2025Updated 10 months ago
- Retrieve data in genomic intervals with a Python interface for tabix.☆82Aug 10, 2017Updated 8 years ago
- High-definition reconstruction of clonal composition from next-generation sequencing data☆42Jun 10, 2016Updated 9 years ago
- Python utilities for building integrated views of TCGA data.☆32Mar 25, 2018Updated 7 years ago
- Programmatically interact with Tamr☆11Jul 25, 2023Updated 2 years ago
- ☆10Jan 27, 2022Updated 4 years ago