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

A Julia package to analyze protein sequences, structures, and evolutionary information

📦 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.

A deepchain-app to predict protein family 🔬

Set of tools for protein sequence enrichment and protein domain finding

CroMaSt (Cross Mapper of domain Structural instances) is an automated iterative workflow to clarify domain definition by cross-mapping of domain structural instances between domain databases.

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.

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

Protein Family Annotator

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