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
MetaDome is aimed at professionals in the (bio-)medical field of human genetics who wish to visualize the position of their variant of interest in the context of general population-based genetic variation, and provides detailed information on pathogenic variants found across homologous protein domain positions, for GRCh37 and GRCh38.
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.
Command-line tools for genomics and proteomics analysis
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.
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.
Find NLR hmms in protein sequences.
A deepchain-app to predict protein family 🔬
Annotate PICRUSt2 functional IDs (KO, EC, Pfam, etc.) using description mapfiles
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. …
Set of tools for protein sequence enrichment and protein domain finding
Representative sequence selection for large bioinformatics datasets
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