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
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.
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/)
Mapping domain co-occurrence networks with emphasis on c-d-GMP binding domains.
Snakemake pipeline for searching genomic sequences for those that encode proteins containing domains of choice
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