Deduplication for cfDNA sequencing data
☆11Jul 5, 2017Updated 8 years ago
Alternatives and similar repositories for dedup
Users that are interested in dedup are comparing it to the libraries listed below
Sorting:
- (No maintenance) Detect gene fusion directly from raw fastq files☆25Aug 13, 2017Updated 8 years ago
- Query Mutated Reads from a Bam☆26Nov 26, 2018Updated 7 years ago
- A simplified pipeline for ctDNA sequencing data analysis☆37Sep 23, 2017Updated 8 years ago
- Detect and visualize microsatellite instability(MSI) from NGS data☆32Jun 4, 2019Updated 6 years ago
- ☆11Aug 3, 2018Updated 7 years ago
- ☆10Sep 14, 2023Updated 2 years ago
- Generate HTML report for a set of genomic regions or DESeq2/edgeR results☆10Jan 14, 2025Updated last year
- Probabilistic single-individual haplotyping☆10Mar 15, 2019Updated 6 years ago
- (No maintenance) Next Generation Sequencing Simulation with SNP, Variation and Sequencing Error Integrated☆24Aug 10, 2017Updated 8 years ago
- Pipeline for Illumina shotgun sequencing of 16S rRNA amplicon sequences☆14Sep 2, 2016Updated 9 years ago
- UVC, a very accurate small-variant caller (https://doi.org/10.1093/bib/bbab458)☆14May 18, 2025Updated 9 months ago
- Tools to handle reads sequenced with unique molecular identifiers (UMIs).☆30Jun 26, 2017Updated 8 years ago
- Workflows for germline short variant discovery in WGS data. PairedEndSingleSampleWf has been superseded in Broad production by https://gi…☆57Mar 19, 2020Updated 5 years ago
- Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets☆38Jul 30, 2020Updated 5 years ago
- Generate and process BAM files from Illumina sequencing instrument files☆23Feb 25, 2016Updated 10 years ago
- Adapters for trimming☆30Jan 30, 2019Updated 7 years ago
- Liftover VCF files☆19Dec 10, 2016Updated 9 years ago
- VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number va…☆22Dec 13, 2019Updated 6 years ago
- R Package for Non Invasive Prenatal Testing (NIPT) analysis☆46Nov 5, 2019Updated 6 years ago
- An algorithm for error-correction of immunosequencing Illumina MiSeq reads and immunoproteogenomic analysis☆18Nov 1, 2018Updated 7 years ago
- MAGERI - Assemble, align and call variants for targeted genome re-sequencing with unique molecular identifiers☆21May 8, 2017Updated 8 years ago
- This is the GitHub repository for our recent study "A comprehensive analysis of the usability and archival stability of omics computation…☆23Dec 8, 2022Updated 3 years ago
- Command line tools for CMDB varaints browser☆23May 14, 2024Updated last year
- ☆11Jul 3, 2022Updated 3 years ago
- ☆17Feb 5, 2026Updated 3 weeks ago
- Generate unique KMERs for every contig in a FASTA file☆49Aug 17, 2022Updated 3 years ago
- ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…☆21Sep 28, 2022Updated 3 years ago
- ☆24Nov 27, 2024Updated last year
- This repo is be archived, these workflows are still housed housed in the GATK repository under the scripts directory. The workflows are a…☆22Mar 9, 2020Updated 5 years ago
- HGVS variant nomenclature checker☆98May 1, 2023Updated 2 years ago
- A fast lossless FASTQ compressor with ultra-high compression ratio☆144May 28, 2025Updated 9 months ago
- Decombinator v5: fast, error-correcting analysis of TCR repertoires☆27Updated this week
- ☆27Updated this week
- Gene Fusion Visualiser☆51Jan 15, 2023Updated 3 years ago
- Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data☆213May 14, 2020Updated 5 years ago
- TNER: Tri-Nucleotide Error Reducer for ctDNA detection☆21Aug 23, 2019Updated 6 years ago
- A nextflow implementation of Kallisto & Sleuth RNA-Seq Tools☆23Jun 3, 2018Updated 7 years ago
- xHLA: Fast and accurate HLA typing from short read sequence data☆113Oct 13, 2023Updated 2 years ago
- wg-blimp: an end-to-end analysis pipeline for whole genome bisulfite sequencing data☆29Jul 31, 2022Updated 3 years ago