stevekm / IGV-snapshot-automatorView external linksLinks
Script to automatically create and run IGV snapshot batchscripts
☆142Jan 13, 2023Updated 3 years ago
Alternatives and similar repositories for IGV-snapshot-automator
Users that are interested in IGV-snapshot-automator are comparing it to the libraries listed below
Sorting:
- Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.☆398Feb 3, 2026Updated last week
- exploratory scripts for clustering ccs amplicon data☆11Feb 2, 2021Updated 5 years ago
- Ximmer is a system for CNV calling on exome and targeted genomic sequencing☆19Jan 28, 2026Updated 2 weeks ago
- Plot structural variant signals from many BAMs and CRAMs☆558Jul 13, 2024Updated last year
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆99Jun 22, 2022Updated 3 years ago
- seqcover allows users to view coverage for hundreds of genes and dozens of samples☆52Apr 9, 2021Updated 4 years ago
- Somatic copy variant caller (CNV) for next generation sequencing☆75Sep 12, 2024Updated last year
- Microassembly based somatic variant caller for NGS data☆154Jun 23, 2022Updated 3 years ago
- Haplotype VCF comparison tools☆455Dec 7, 2023Updated 2 years ago
- simple bioinformatics command-line (t)ools (i) (w)ished (i) (h)ad.☆44Mar 29, 2023Updated 2 years ago
- genetic variant expressions, annotation, and filtering for great good.☆271Dec 15, 2025Updated 2 months ago
- A framework to annotate SVs with previous known SVs (vcf file) and or with genomic features (gff and or bed files)☆13Mar 12, 2018Updated 7 years ago
- Sample Contamination Estimate from VCF☆20Nov 6, 2024Updated last year
- Count bases in BAM/CRAM files☆324Jan 31, 2022Updated 4 years ago
- GRIDSS: the Genomic Rearrangement IDentification Software Suite☆279May 21, 2025Updated 8 months ago
- Toolset for SV simulation, comparison and filtering☆411Dec 1, 2023Updated 2 years ago
- Genomic VCF to tab-separated values☆48Mar 9, 2023Updated 2 years ago
- R package designed to simplify structural variant analysis☆74Dec 22, 2021Updated 4 years ago
- don't get DUP'ed or DEL'ed by your putative SVs.☆107Dec 14, 2020Updated 5 years ago
- Structural variation and indel detection by local assembly☆251Sep 16, 2025Updated 5 months ago
- samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.☆238Aug 11, 2021Updated 4 years ago
- Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants …☆176Jan 7, 2020Updated 6 years ago
- Copy number calling and variant classification using targeted short read sequencing☆143Aug 28, 2025Updated 5 months ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Jun 7, 2019Updated 6 years ago
- Python library for simple and complex indels.☆12Jan 22, 2024Updated 2 years ago
- Tools for working with genomic and high throughput sequencing data.☆353Jan 26, 2026Updated 3 weeks ago
- Benchmark structural variant calls against a reference set☆18Jan 26, 2026Updated 3 weeks ago
- ☆44Sep 10, 2024Updated last year
- ☆33Aug 2, 2022Updated 3 years ago
- Symmetric DUST for finding low-complexity regions in DNA sequences☆45Jul 24, 2025Updated 6 months ago
- Wally: Visualization of aligned sequencing reads and contigs☆122Oct 9, 2025Updated 4 months ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆822Updated this week
- VariantStore: A Large-Scale Genomic Variant Search Index☆39Jul 9, 2021Updated 4 years ago
- Annotation and Ranking of Structural Variation☆287Oct 7, 2025Updated 4 months ago
- karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome☆356Jun 6, 2025Updated 8 months ago
- Somatic point mutation caller☆17Jul 8, 2016Updated 9 years ago
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆105Jun 6, 2021Updated 4 years ago
- VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.☆99May 21, 2024Updated last year
- A method for variant graph genotyping based on exact alignment of k-mers☆87Apr 1, 2019Updated 6 years ago