Kalan-Lab / codoffLinks
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.
☆13Updated last week
Alternatives and similar repositories for codoff
Users that are interested in codoff are comparing it to the libraries listed below
Sorting:
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆27Updated 2 months ago
- Fast implementation of KofamScan optimized for high-memory systems using PyHMMER☆14Updated 2 months ago
- Python implementation of barrnap (Bacterial ribosomal RNA predictor)☆22Updated 9 months ago
- PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.☆20Updated 11 months ago
- A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.☆20Updated 2 months ago
- Python package to plot a phylogenetic tree on an existing matplotlib axis.☆26Updated 3 months ago
- Bacterial Operon Finder for Functional Organization☆15Updated 2 years ago
- ☆17Updated 7 months ago
- lsaBGC - suite for pan-BGC-omics analysis☆21Updated last month
- Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.☆23Updated last month
- software to identify primers that can distinguish genomes☆20Updated 2 weeks ago
- Computation of average nucleotide identity with the use of MMseqs2☆15Updated 11 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆55Updated 7 months ago
- snapper☆13Updated last year
- A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.☆16Updated this week
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆26Updated 3 months ago
- BinaRena: Interactive Visualization and Binning of Metagenomic Contigs☆32Updated last year
- Non-redundant pangenome assemblies from multiple genomes or bins☆14Updated 6 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆33Updated 2 months ago
- Rapid discovery of novel prophages using biological feature engineering and machine learning☆36Updated 10 months ago
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆34Updated 11 months ago
- A workflow and scripts for large-scale antiSMASH analyses☆46Updated 7 months ago
- ☆24Updated 9 months ago
- Basecalling configuration prediction through FASTQ files☆31Updated 5 months ago
- ☆52Updated 6 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- ☆12Updated 5 months ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 8 months ago
- k-mer based Pipeline to identify the Serotype from Illumina NGS reads☆25Updated 2 years ago
- Utility to analyse a group of closely related MAgs/Genomes/bins/SUBs of more or less dubious origin☆14Updated last year