codoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, prophage, etc.) relative to the full genome.
☆13Jan 19, 2026Updated 2 months ago
Alternatives and similar repositories for codoff
Users that are interested in codoff are comparing it to the libraries listed below
Sorting:
- Fast implementation of KofamScan optimized for high-memory systems using PyHMMER☆17Jan 13, 2026Updated 2 months ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆71Mar 9, 2026Updated last week
- Reaction Analysis through Imaging of Chemical Units☆16Dec 5, 2025Updated 3 months ago
- lsaBGC - suite for pan-BGC-omics analysis☆23Nov 21, 2025Updated 3 months ago
- ☆15Feb 10, 2025Updated last year
- STRIDE: Species Tree Root Inference from Gene Duplication Events☆11Aug 28, 2018Updated 7 years ago
- A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.☆22Nov 25, 2025Updated 3 months ago
- lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters☆41Sep 28, 2025Updated 5 months ago
- Convert genbank files to a swath of other formats☆30Mar 3, 2026Updated 2 weeks ago
- GEne Cluster prediction with COnditional random fields.☆82Mar 10, 2026Updated last week
- Phage annotations and predictions. A spae is a prediction or foretelling. We'll foretell you what your phage is doing!☆41Feb 26, 2026Updated 3 weeks ago
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t☆12Feb 23, 2025Updated last year
- ☆18Mar 20, 2025Updated last year
- Lightweight bioinformatics pipeline for microbial genome recovery☆18Oct 23, 2025Updated 4 months ago
- Genomewide Epistasis Analysis on Bacteria☆15May 13, 2025Updated 10 months ago
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆29Aug 20, 2025Updated 6 months ago
- (Meta-)genome screening for functional and natural product gene sequences☆103Updated this week
- Genome size estimation from long read overlaps☆81Mar 9, 2026Updated last week
- scripts for microbiome analysis☆12Jul 25, 2024Updated last year
- Python library for identification and masking of low-complexity regions in nucleotide sequences☆10Jan 23, 2026Updated last month
- A command-line tool for profiling CAZyme abundances in metagenomic datasets.☆16Updated this week
- Follow up to Grace Blackwell's 661k dataset, for 2023☆136Feb 26, 2026Updated 3 weeks ago
- This tool estimates the completeness of KEGG pathway modules from the presence or absence of KEGG orthologues (KOs)☆32Jan 19, 2026Updated 2 months ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆54Sep 7, 2025Updated 6 months ago
- Rapid estimation of phylogenetic trees using sketching☆13Feb 18, 2025Updated last year
- PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.☆20Dec 12, 2024Updated last year
- Microbial agile accurate SNP Typer☆30Dec 27, 2023Updated 2 years ago
- ☆50Jan 4, 2026Updated 2 months ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆240Oct 12, 2025Updated 5 months ago
- Efficient and fast querying and parsing of GTDB's data☆29Aug 21, 2025Updated 6 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆65Apr 10, 2025Updated 11 months ago
- scripts for predicting natural product activity from biosynthetic gene cluster sequences☆24Updated this week
- ☆44Jun 11, 2025Updated 9 months ago
- Fast and accurate Average Genome Size and 16S rRNA gene Average Copy Number computation in metagenomic data☆15Dec 20, 2024Updated last year
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- ☆23May 8, 2023Updated 2 years ago
- From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)☆21Jul 8, 2024Updated last year
- Pipeline for metagenomic community analysis using DNA isolated from virus-like particles☆13Mar 21, 2020Updated 5 years ago
- ☆16Mar 2, 2026Updated 2 weeks ago