The integrated pipeline for Indel detection
☆17Apr 29, 2018Updated 8 years ago
Alternatives and similar repositories for ScanIndel
Users that are interested in ScanIndel are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- IMSindel: An accurate intermediate-size indel detection tool incorporating de novo assembly and gapped global-local alignment with split …☆16Aug 22, 2023Updated 2 years ago
- Generate mutated sequence files from a reference genome.☆11Dec 26, 2022Updated 3 years ago
- ☆11Mar 4, 2025Updated last year
- HGVS variant description extractor☆11Apr 13, 2026Updated 2 weeks ago
- Assembly Based ReAligner☆75May 24, 2018Updated 7 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model☆27Dec 26, 2023Updated 2 years ago
- A deletion finder through re-aligning the whole soft-clipping read☆12Jul 2, 2016Updated 9 years ago
- Simulator for structural variants in various types of next-generation sequencing data☆11Mar 21, 2017Updated 9 years ago
- TIDDIT - structural variant calling☆10Dec 8, 2025Updated 4 months ago
- ☆13May 2, 2018Updated 7 years ago
- ☆12Dec 6, 2023Updated 2 years ago
- Load numpy arrays and HDF5 files from VCF (variant call format)☆31Jun 27, 2017Updated 8 years ago
- Pipeline to phase a genome into two homeologous subgenomes. Parental genomes are required.☆10May 22, 2025Updated 11 months ago
- Haplotype, isoform and gene level expression analysis using multi-mapping RNA-seq reads☆67Mar 14, 2024Updated 2 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- A collection of command line tools for working with sequencing data☆52Apr 14, 2026Updated 2 weeks ago
- A curated list of awesome clonality and tumor heterogeneity resources☆15Jun 25, 2019Updated 6 years ago
- A genomics pipeline build on top of the GATK Queue framework. Main repository: https://github.com/NationalGenomicsInfrastructure/piper (m…☆21Sep 6, 2016Updated 9 years ago
- ABRA2☆96Dec 2, 2022Updated 3 years ago
- Indel caller for DNA-seq or RNA-seq☆16Aug 8, 2023Updated 2 years ago
- BigBWA is a new tool that uses the Big Data technology Hadoop to boost the performance of the Burrows–Wheeler aligner (BWA).☆31Jul 12, 2022Updated 3 years ago
- Adaptive haplotype assembly for efficiently leveraging high coverage in long reads☆13Sep 4, 2018Updated 7 years ago
- Location of structural errors in a genome assembly and structural variations between a pair of genomes☆11Sep 27, 2019Updated 6 years ago
- haplotypes genotypes and alleles example decision synthesizer☆20Jun 13, 2019Updated 6 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- ☆11Oct 7, 2025Updated 6 months ago
- Bayesian genotyper for structural variants☆136Apr 13, 2026Updated 2 weeks ago
- Identifying ViRal and Circular content in metAgenomes☆14Dec 13, 2018Updated 7 years ago
- Probabilistic single-individual haplotyping☆10Mar 15, 2019Updated 7 years ago
- Two locus likelihoods and ARGs under changing population size☆14Dec 18, 2025Updated 4 months ago
- Structural variation and indel detection by local assembly☆255Apr 24, 2026Updated last week
- Calculate dN/dS ratio precisely (Ka/Ks) using a codon-by-codon counting method.☆26Apr 30, 2018Updated 8 years ago
- Python implementation of Striped Smith-Waterman Algorithm☆24Mar 4, 2024Updated 2 years ago
- This is the GitHub repository for our benchmarking study "Benchmarking of computational error-correction methods for next-generation sequ…☆12Mar 13, 2020Updated 6 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- ♥ Efficient Estimation of Evolutionary Distances☆47Feb 15, 2026Updated 2 months ago
- probability of mendelian error in trios.☆11Jan 27, 2016Updated 10 years ago
- Parallel merging, squaring off and ensemble calling for genomic variants☆20Sep 17, 2019Updated 6 years ago
- lumpy: a general probabilistic framework for structural variant discovery☆342Feb 22, 2026Updated 2 months ago
- DiscoSnp is designed for discovering all kinds of SNPs (not only isolated ones), as well as insertions and deletions, from raw set(s) of…☆40Jun 29, 2023Updated 2 years ago
- filtering trio-based genetic variants in VCFs for clinical review☆21Aug 18, 2020Updated 5 years ago
- Efficient handling of FASTQ files from Python☆51Nov 28, 2025Updated 5 months ago