felixfan / PyHLA
Python for HLA analysis: summary, association analysis, zygosity test and interaction test
☆34Updated 9 months ago
Alternatives and similar repositories for PyHLA
Users that are interested in PyHLA are comparing it to the libraries listed below
Sorting:
- Burden testing against public controls☆50Updated last year
- This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…☆52Updated 4 years ago
- ☆68Updated 2 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆97Updated 4 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 5 years ago
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆98Updated 2 years ago
- CNV screening and annotation tool☆25Updated 8 years ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆71Updated 4 years ago
- utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.☆48Updated 6 years ago
- ☆53Updated 2 years ago
- This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…☆78Updated 5 years ago
- Documenting usage and experience with bioinformatic tools☆41Updated 9 years ago
- Fork of the Polysolver project☆31Updated 5 years ago
- identifying mutational significance in cancer genomes☆61Updated 2 years ago
- Workflows for converting between sequence data formats☆38Updated 3 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆71Updated 11 months ago
- ☆21Updated last week
- Microsatellite Analysis for Normal-Tumor InStability☆69Updated 2 years ago
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆50Updated 2 years ago
- Characterization of Germline variants☆98Updated 3 years ago
- Multi-sample somatic variant caller☆50Updated 3 years ago
- Exome/Capture/RNASeq Pipeline Implementation using snakemake☆46Updated 7 years ago
- In-silico method written in Python and R to determine HLA genotypes of a sample. seq2HLA takes standard RNA-Seq sequence reads in fastq f…☆49Updated last year
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 7 years ago
- ☆68Updated last year
- Identifying recurrent mutations in cancer☆37Updated 4 years ago
- ☆41Updated last year
- Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such…☆53Updated 7 years ago
- DEPRECATED. This tool has been superseded by https://github.com/griffithlab/pVACtools☆61Updated 6 years ago
- ☆25Updated 5 years ago