felixfan / PyHLA
Python for HLA analysis: summary, association analysis, zygosity test and interaction test
☆32Updated 5 months ago
Alternatives and similar repositories for PyHLA:
Users that are interested in PyHLA are comparing it to the libraries listed below
- This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…☆51Updated 4 years ago
- Burden testing against public controls☆50Updated 10 months ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 5 years ago
- CNV screening and annotation tool☆24Updated 8 years ago
- Fork of the Polysolver project☆30Updated 5 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆96Updated 3 years ago
- Create "haplotype maps" of variants in order to use with Picardtools Crosscheck_Files utility, which allows for robust genotyping of func…☆26Updated last year
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆96Updated 2 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 6 years ago
- Characterization of Germline variants☆98Updated 2 years ago
- Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data☆66Updated 4 months ago
- Documenting usage and experience with bioinformatic tools☆41Updated 9 years ago
- ☆51Updated 2 years ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆69Updated 4 years ago
- ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…☆20Updated 2 years ago
- ☆24Updated 5 years ago
- ☆65Updated last year
- Exome/Capture/RNASeq Pipeline Implementation using snakemake☆45Updated 6 years ago
- CADD scripts release for offline scoring. For more information about CADD, please visit our website☆75Updated last month
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆49Updated 2 years ago
- identifying mutational significance in cancer genomes☆60Updated 2 years ago
- Tools for analyzing DNA methylation data☆36Updated last month
- CN-Learn☆29Updated 4 years ago
- Reference data: BED files, genes, transcripts, variations.☆82Updated 7 years ago
- QDNAseq package for Bioconductor☆49Updated 5 months ago
- This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…☆76Updated 4 years ago
- ☆45Updated 5 years ago
- A simplified pipeline for ctDNA sequencing data analysis☆36Updated 7 years ago
- Relevant papers for CNV and SV approaches☆94Updated 2 months ago
- R package for inferring copy number from read depth☆32Updated 2 years ago