Bact-Builder: Microbial de novo genome assembly pipeline
☆13Dec 5, 2022Updated 3 years ago
Alternatives and similar repositories for bact-builder
Users that are interested in bact-builder are comparing it to the libraries listed below
Sorting:
- 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
- Python module to manipulate and visualize minimap2's cs tag☆11Jul 28, 2024Updated last year
- Mycobacterium tuberculosis complex lineage typing☆10Jun 22, 2025Updated 8 months ago
- Location of structural errors in a genome assembly and structural variations between a pair of genomes☆11Sep 27, 2019Updated 6 years ago
- Uses cDBG to count unitigs in bacterial populations☆16Feb 15, 2023Updated 3 years ago
- ☆13Mar 28, 2018Updated 7 years ago
- Three bacterial GWAS methods all rolled into one easy-to-use R package☆22Apr 16, 2024Updated last year
- A bioinformatics best-practice analysis pipeline for calling structural variants (SVs), copy number variants (CNVs) and repeat region exp…☆27Feb 23, 2026Updated 2 weeks 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
- CNN models for antibiotic resistance prediction in M. tuberculosis genomes. From Green & Yoon et al (forthcoming)☆28Jan 19, 2023Updated 3 years ago
- Gene Ontology subgraph visualizations☆20Jan 6, 2026Updated 2 months ago
- ☆20Apr 24, 2025Updated 10 months ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Jun 17, 2022Updated 3 years ago
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆35Dec 2, 2024Updated last year
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆29Sep 21, 2024Updated last year
- Profiling tool for Mycobacterium tuberculosis to detect ressistance and strain type from WGS data☆133Mar 2, 2026Updated last week
- Add biological annotations to variants in a given VCF file.☆32Sep 13, 2021Updated 4 years ago
- IslandPath standalone software☆36Nov 7, 2023Updated 2 years ago
- ☆31Feb 6, 2026Updated last month
- ☆35Dec 20, 2023Updated 2 years ago
- extract MSAs from genome variation graphs☆34Updated this week
- Genome-wide TR catalog and variation clusters described in [Weisburd, Dolzhenko, et al. 2024]☆17Feb 19, 2026Updated 2 weeks ago
- Phasing of dikaryotic fungal genome assemblies☆13Mar 1, 2023Updated 3 years ago
- UFCG: Universal Fungal Core Genes☆35Jul 29, 2025Updated 7 months ago
- Protein Purification☆11Dec 7, 2016Updated 9 years ago
- A list of awesome awesomeness related to bioinformatics and associated fields☆43Jan 21, 2026Updated last month
- Pipeline for metabolic annotation of microbial genomes☆150Mar 20, 2025Updated 11 months ago
- 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
- 16S rRNA marker gene upstream and dowstream analysis tutorial for the UCT Hex cluster.☆11Jan 15, 2021Updated 5 years ago
- VETA - A simple tool do evaluate variant predictors☆11Jun 17, 2024Updated last year
- ☆10Aug 4, 2020Updated 5 years ago
- ☆11Oct 11, 2024Updated last year
- This is a tool to estimate pairwise relatedness from ancient DNA, taking in account contamination, ROH, ascertainment bias.☆14Aug 6, 2024Updated last year
- 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
- Ready-to-use pipeline to detect, count and identify the hgcAB genes, involved in mercury methylation, from metagenomes☆10May 17, 2024Updated last year
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t☆12Feb 23, 2025Updated last year
- ☆16Jan 14, 2026Updated last month
- Tumor type classifier using cancer genomic panel sequencing data☆12Mar 12, 2024Updated last year