Cython bindings and Python interface to HMMER3.

A package to annotate protein sequences

Annotate DNA sequences for Gene Ontology terms

MFannot is a program for the annotation of mitochondrial and plastid genomes

Simple R utilities for working with HMMER

A platform for targeted annotation of (meta)genomic and (meta)transcriptomic datasets using HMM sets.

A Pure-Python parser of HMMER3 output

Django website project for common sequence search tools.

Query sequence database by HMMs arranged in predefined synteny structure

A Galaxy based system for identifying retrotransposons in genome

An ML-based predictor of GPCR/G-protein couplings using only sequence information

A lightweight rewrite of run_dbcan for better multithread performance

basic visualization of hmm profile matches to multiple fasta files

Command-line tools for genomics and proteomics analysis

MetAnnotate is a tool and web application for taxonomic profiling of shotgun metagenomes.

Create HMMs from KEGG orthologs

A workflow for identifying novel viruses in Virtool

This repository contains the code used for screening putative extracellular Contractile Injection System (eCIS) loci from genomic sequences.

Pipeline to fetch species assemblies from NCBI, run MacSyFinder per genome, and emit clean system/component matrices.

A unified Python CLI for 30 bioinformatics file-format conversions (VCF, GFF3, GTF, BED, GenBank, FASTA, FASTQ, BAM, EIGENSTRAT, PLINK, MAF, MUMmer, HMMER, Newick) with consistent flags, batch mode, and a published Stage 1 benchmark vs convertf, plink2, AGAT, gffread, UCSC, EMBOSS, pyhmmer.