BamDeal: a comprehensive toolkit for bam manipulation
☆54Dec 21, 2022Updated 3 years ago
Alternatives and similar repositories for BamDeal
Users that are interested in BamDeal are comparing it to the libraries listed below
Sorting:
- FxTools: a comprehensive toolkit for FASTA and FASTQ file manipulation☆31Feb 16, 2022Updated 4 years ago
- VCF2Dis: A new simple and efficient software to calculate p-distance matrix and construct population phylogeny based Variant Call Forma…☆103Aug 27, 2025Updated 6 months ago
- A Toolkit for analyzing next-generation DNA Re-Sequencing data☆84Feb 15, 2022Updated 4 years ago
- RRSelection: A linkage disequilibrium method to detect selection region across population VCF☆14Feb 11, 2019Updated 7 years ago
- Official code repository for JAX-CNV☆14Jan 16, 2020Updated 6 years ago
- ☆20Nov 30, 2023Updated 2 years ago
- VCF2Dis: an ultra-fast and efficient tool to calculate pairwise genetic distance and construct population phylogeny from VCF files☆53Aug 27, 2025Updated 6 months ago
- Framework to benchmark algorithms when detecting germline copy number variations (CNVs) from NGS data☆14Dec 24, 2024Updated last year
- Multi-level visualization of genomic statistical variables on rectangular chromosomes☆110Feb 24, 2026Updated last week
- Split a BAM file by haplotype support☆16Dec 13, 2017Updated 8 years ago
- A k-mer frequency statistics software☆15Nov 19, 2021Updated 4 years ago
- LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files☆206Jul 5, 2025Updated 8 months ago
- BWA-MEME: Faster BWA-MEM2 using learned-index☆133Jul 1, 2024Updated last year
- ☆10Jun 13, 2020Updated 5 years ago
- ☆39Feb 22, 2023Updated 3 years ago
- Plot CNV data with a genome viewer in R☆15Apr 5, 2017Updated 8 years ago
- PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files☆29Aug 15, 2024Updated last year
- PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files☆203Aug 15, 2024Updated last year
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Aug 24, 2022Updated 3 years ago
- Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish☆57Jan 26, 2023Updated 3 years ago
- NeoFuse is a user-friendly pipeline for the prediction of fusion neoantigens from tumor RNA-seq data.☆20Aug 9, 2022Updated 3 years ago
- Evaluation and polishing workflows for T2T genome assemblies☆147Jul 7, 2025Updated 8 months ago
- Automatically design multiplex PCR primer pairs for diverse templates☆31May 23, 2024Updated last year
- amplicon/smMIP mapping and analysis pipeline☆11Dec 8, 2022Updated 3 years ago
- Multi-level visualization of genomic statistical variables on rectangular chromosomes☆44Feb 24, 2026Updated last week
- Yet another k-mer analyzer☆161Dec 30, 2025Updated 2 months ago
- 🏔 coverage extraction from BAM/CRAM files, supporting targets 📊☆65Feb 2, 2026Updated last month
- ☆78Jun 12, 2020Updated 5 years ago
- ♥ Fast and Accurate Estimation of Evolutionary Distances☆29Apr 14, 2025Updated 10 months ago
- Trimming tool for Oxford Nanopore sequence data☆22Jun 22, 2021Updated 4 years ago
- HAST: Haplotype-Resolved Assembly for Synthetic Long Reads Using A Trio-Binning Strategy☆18Apr 20, 2023Updated 2 years ago
- A tool to detect structural variant☆17Mar 27, 2023Updated 2 years ago
- Comprehensive alignment, whole-genome coverage, and capture coverage statistics.☆20Dec 17, 2024Updated last year
- Program for aligning DNA sequences, a pairwise aligner.☆239Jun 16, 2025Updated 8 months ago
- A variational framework for inferring population structure from SNP genotype data.☆143Jan 6, 2023Updated 3 years ago
- SRF: Satellite Repeat Finder☆103Jan 8, 2024Updated 2 years ago
- Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.☆109Jun 17, 2022Updated 3 years ago
- Long-reads Gap-free Chromosome-scale Assembler☆79Mar 21, 2023Updated 2 years ago
- ☆14Oct 29, 2021Updated 4 years ago