tjbencomo / ngs-pipelineView external linksLinks
Pipeline for Somatic Variant Calling with WES and WGS data
☆24May 7, 2024Updated last year
Alternatives and similar repositories for ngs-pipeline
Users that are interested in ngs-pipeline are comparing it to the libraries listed below
Sorting:
- Scripts in R for Landscape Genomics Analyses v.2☆10Feb 17, 2023Updated 2 years ago
- Functional code templates for the Star Protocols paper describing consolidated WES variant calling with 3 callers☆10Oct 18, 2024Updated last year
- A Snakemake pipeline for Quality Control of Whole Genome Sequencing data☆14Jan 18, 2022Updated 4 years ago
- This Snakemake pipeline implements the GATK best-practices workflow☆262Jun 8, 2023Updated 2 years ago
- A Pipeline to Process RNAseq Data☆15Jun 15, 2022Updated 3 years ago
- ☆16May 10, 2023Updated 2 years ago
- a gatk4 pipeline with NA12878 demo dateset ,conda environment used(no GPU)☆15Aug 28, 2019Updated 6 years ago
- In this study, we perform systematic comparative analysis of seven widely-used SNV-calling methods, including SAMtools, the GATK Best Pra…☆16Oct 16, 2019Updated 6 years ago
- Fork of https://bitbucket.org/mcgranahanlab/lohhla☆18Feb 19, 2020Updated 5 years ago
- A deep learning-based SNP calling method to identify SNPs based on low-coverage Nanopore sequencing reads.☆21Nov 20, 2022Updated 3 years ago
- Immunoglobulin and T-Cell receptor rearrangement software☆51Jan 9, 2026Updated last month
- Python Scripts for Bioinformatics☆15Apr 24, 2024Updated last year
- ☆10Feb 25, 2024Updated last year
- Clinical Whole Genome and Exome Sequencing Pipeline☆29Oct 27, 2025Updated 3 months ago
- Scripts to Analyze DTC Sequencing and Genotyping Data (and some comparisons to Veritas WGS data)☆20Nov 28, 2024Updated last year
- ☆14Updated this week
- Scripts for Hill et al. (2022) doi:10.1093/molbev/msac085 🟣☆11Apr 28, 2023Updated 2 years ago
- This is something I have decided to do to make something good come out of the current covid situation. Here I will put the publicly avail…☆12Sep 6, 2021Updated 4 years ago
- scSNV Mapping tool for 10X Single Cell Data☆25Dec 19, 2025Updated last month
- 生物信息学python代码，专注于重测序文本计算、处理☆30May 29, 2025Updated 8 months ago
- A genome annotation pipeline that use short and long sequencing reads alignments from animal genomes☆30Apr 10, 2024Updated last year
- Single Cell Analysis Automated Workflow☆28May 22, 2023Updated 2 years ago
- ☆32Apr 17, 2023Updated 2 years ago
- Gene set enrichment analysis for single-cell RNAseq data☆31Feb 17, 2023Updated 2 years ago
- Somatic copy variant caller (CNV) for next generation sequencing☆75Sep 12, 2024Updated last year
- Tool for parsing outputs from fusion detection tools. Part of a nf-core/rnafusion pipeline. Checkout a live demo at https://matq007.githu…☆28Jun 13, 2025Updated 8 months ago
- Scripts to import your FeatureCounts output into DEXSeq☆34Oct 27, 2018Updated 7 years ago
- A lightweight and handy variant calling pipeline generator for whole-genome sequencing (WGS) and whole exom sequencing data (WES) analysi…☆142May 20, 2025Updated 8 months ago
- IAN: An Intelligent System for Omics Data Analysis and Discovery☆10Jul 15, 2025Updated 7 months ago
- My R scripts, primarily R plotting scripts + some genomics software including 16S rRNA metataxnomics and RNAseq☆12Dec 19, 2022Updated 3 years ago
- Repository☆10Oct 23, 2024Updated last year
- Genomic Annotation in Livestock for positional candidate LOci☆13Feb 26, 2021Updated 4 years ago
- ☆24Nov 9, 2017Updated 8 years ago
- Student course material for the Applied Bioinformatics course at Scripps Research☆39Oct 11, 2022Updated 3 years ago
- A cell counter using computer vision techniques.☆10May 13, 2022Updated 3 years ago
- MirMachine, a command line tool to detect microRNA homologs in genome sequences.☆13Dec 3, 2025Updated 2 months ago
- bioinformatics learning☆13Oct 10, 2023Updated 2 years ago
- ☆11Mar 23, 2022Updated 3 years ago
- A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations☆35Jan 28, 2022Updated 4 years ago