Popular repositories Loading

1. fasta-extractor fasta-extractor Public

   fasta-extractor.pl extracts ORFs from a genomic fasta file based on coordinates in an ID list, generating corresponding sequences from two input files: genomic_fasta-file and id_list-file.

   Perl 1

2. NCBIClosestStrainFetcher NCBIClosestStrainFetcher Public

   A Python utility to extract closest reference strain data from the NCBI database using assembly identifiers from a TSV input file (gtdbtk.bac120.summary.tsv). The script outputs detailed strain inf…

   Python 1

3. BV-BRC-Genome-Downloader BV-BRC-Genome-Downloader Public

   A command-line utility for efficiently downloading genome data from the Bacterial and Viral Bioinformatics Resource Center (BV-BRC), supporting multiple file types and providing failure logs for tr…

   Shell 1

4. Pathway-Feature-Identification Pathway-Feature-Identification Public

   "Pathway_Feature_Identification.py" is a script for analyzing microbial genomic data, identifying antimicrobial resistance-associated pathways using KEGG data, and applying logistic regression for …

   Python 1

5. AMRFinderPlus-Matrix AMRFinderPlus-Matrix Public

   AMRFinderPlus-Matrix contains script for processing the output files of AMRFinderPlus and generating a binary matrix that shows the presence or absence of antibiotic resistance genes, stress respon…

   Python

6. stouffers-method-statistical-analysis stouffers-method-statistical-analysis Public

   The "stouffers_method.R" code performs statistical analysis using Stouffer's method to combine p-values for a group of entities from tab-separated input data, and outputs the results to a new tab-s…

   R