Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)

Mutual Information Tools for protein Sequence analysis in Julia

📦 A Command Line Tool for downloading protein structures, sequences and MSAs

Co-occurrence of enzyme domains

Scripts to calculate sequence similarity networks (SSNs) and clustering of protein sequences.

PFAM's micro service to assist to Mistic2.

PARS is a python package for browsing and downloading files deposed in Pfam and Rfam databases (e.g. sequences, alignments, hmm). It has implemented classes dedicated to Pfam data like: PfamFamily or PfamClan. PARS is compatible with Biopython modules, but also is extended by HMMER wrapper which enables convenient usage of downloaded HMM files. …

Method for retrieving and visualising the protein domains of any protein coding isoform and of different genomes. Enables joint visualisations representing alternative splicing events.

Interactively explore the relationship between a variant of interest, protein structure, and previously reported variants.

Julia package to interact with the Pfam database.

Set of tools for protein sequence enrichment and protein domain finding

A deepchain-app to predict protein family 🔬

Find NLR hmms in protein sequences.

A Bio2BEL package for PFAM (https://pfam.xfam.org/)

The script will generate and display the phylogeny tree, with MSA and domain distribution labels assigned to the tree leaves.

Snakemake pipeline for searching genomic sequences for those encoding proteins containing domains of choice

Mapping domain co-occurrence networks with emphasis on c-d-GMP binding domains.

Protein Family Annotator

Minimal benchmark test to compare zstd (zstandard) compression with gzip for the datafile Pfam-A.full.gz