4 items tagged with 'BGE'.
Created: 25th Apr 2025 at 11:56
Stable
Gene_fetch
This tool fetches gene sequences from NCBI databases based on taxonomy IDs (taxids) or taxonomic information. It can retrieve both protein and nucleotide sequences for various genes, including protein-coding genes (e.g., cox1, cytb, rbcl, matk) and rRNA genes (e.g., 16S, 18S).
Feature highlight
- Fetch protein and/or nucleotide sequences from NCBI GenBank database.
- Handles both direct nucleotide sequences and protein-linked nucleotide searches (CDS extraction includes fallback ...
Created: 17th Apr 2025 at 13:57, Last updated: 28th May 2025 at 14:49
Stable
skim2mito
skim2mito is a snakemake pipeline for the batch assembly, annotation, and phylogenetic analysis of mitochondrial genomes from low coverage genome skims. The pipeline was designed to work with sequence data from museum collections. However, it should also work with genome skims from recently collected samples.
Contents
- Setup
- Example data
- Input
- Output
- Filtering contaminants
- [Assembly and ...
Created: 12th Mar 2024 at 15:03, Last updated: 7th Oct 2024 at 13:24
Stable
Created: 9th Nov 2023 at 09:43, Last updated: 24th Nov 2023 at 15:24