Python module to manipulate and visualize minimap2's cs tag
☆11Jul 28, 2024Updated last year
Alternatives and similar repositories for cstag
Users that are interested in cstag are comparing it to the libraries listed below
Sorting:
- Location of structural errors in a genome assembly and structural variations between a pair of genomes☆11Sep 27, 2019Updated 6 years ago
- Bact-Builder: Microbial de novo genome assembly pipeline☆13Dec 5, 2022Updated 3 years ago
- General purpose tools for every-day sequencing bioinformatics. If you use any of these tools, please acknowledge this repository (there a…☆12Oct 13, 2020Updated 5 years ago
- Uses cDBG to count unitigs in bacterial populations☆16Feb 15, 2023Updated 3 years ago
- ☆13Mar 28, 2018Updated 7 years ago
- Within-species genome-wide dN/dS estimation from very many genomes☆23Oct 26, 2020Updated 5 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Feb 15, 2019Updated 7 years ago
- An ensemble method to recover corrupted FASTQ files, drop or fix pesky lines, remove unpaired reads, and settle reads interleaving.☆31Jan 30, 2025Updated last year
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆27Jul 22, 2024Updated last year
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Jun 17, 2022Updated 3 years ago
- De novo construction of isoforms from long-read data☆35Jun 10, 2025Updated 8 months ago
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆29Sep 21, 2024Updated last year
- Genome-wide TR catalog and variation clusters described in [Weisburd, Dolzhenko, et al. 2024]☆17Feb 19, 2026Updated 2 weeks ago
- extract MSAs from genome variation graphs☆34Sep 20, 2020Updated 5 years ago
- Phasing of dikaryotic fungal genome assemblies☆13Mar 1, 2023Updated 3 years ago
- Protein Purification☆11Dec 7, 2016Updated 9 years ago
- ☆38Dec 29, 2025Updated 2 months ago
- CLfinder-OrthNet, a pipeline to encode orthologs from multiple genomes and their evolutionary history into networks (OrthNets) based on c…☆10Jun 9, 2022Updated 3 years ago
- ☆16Jan 14, 2026Updated last month
- This is a tool to estimate pairwise relatedness from ancient DNA, taking in account contamination, ROH, ascertainment bias.☆14Aug 6, 2024Updated last year
- Query sequence database by HMMs arranged in predefined synteny structure☆14Nov 3, 2023Updated 2 years ago
- PSI-MOD ontology for modified and unmodified amino acid residues☆14Jan 8, 2026Updated last month
- Tumor type classifier using cancer genomic panel sequencing data☆12Mar 12, 2024Updated last year
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t☆12Feb 23, 2025Updated last year
- ☆11Aug 20, 2019Updated 6 years ago
- A fast and accurate binning refinement tool to constructs high quality MAGs from the output of multiple binning tools.☆44Feb 5, 2026Updated last month
- ☆13Nov 15, 2017Updated 8 years ago
- faster haplotype-based admixture inference and dating software☆10Nov 25, 2025Updated 3 months ago
- scripts used to analyse horizontal transfer and evolution of transposable elements in 307 vertebrate species☆11May 16, 2021Updated 4 years ago
- A package to count reads mapping on transposable elements subfamilies, families and classes.☆12Feb 3, 2023Updated 3 years ago
- Python3 wrapper for parallelized gene prediction using Prodigal☆11Mar 3, 2023Updated 3 years ago
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12May 22, 2024Updated last year
- Genotyping lots of samples with big pangenomes☆11Oct 30, 2025Updated 4 months ago
- Day 2 of ACAD's 2018 Advanced Bioinformatics Workshop☆12Nov 27, 2018Updated 7 years ago
- Pan-genome Analysis☆12May 4, 2025Updated 10 months ago
- deepBreaks , a computational method, aims to identify important changes in association with the phenotype of interest using multi-alignme…☆12Oct 22, 2025Updated 4 months ago
- R functions for very fast eigenvector calculation☆11Jan 18, 2023Updated 3 years ago
- A merged read deduplication tool capable to perform merged read deduplication on single end data.☆12Sep 4, 2024Updated last year