A Bio2BEL package for PFAM (https://pfam.xfam.org/)
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Nov 13, 2019 - Python
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pfam
Here are 28 public repositories matching this topic...
Mapping domain co-occurrence networks with emphasis on c-d-GMP binding domains.
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May 3, 2017 - Jupyter Notebook
Minimal benchmark test to compare zstd (zstandard) compression with gzip for the datafile Pfam-A.full.gz
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Jan 9, 2020
Command-line bioinformatics tools and utilities
bioinformatics genomics hpc slurm computational-biology research-tool proteomics blast command-line-tool hmmer pfam sequence-analysis
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Jun 20, 2025 - Python
Snakemake pipeline for searching genomic sequences for those that encode proteins containing domains of choice
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Sep 14, 2024 - Python
Set of tools for protein sequence enrichment and protein domain finding
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Jun 1, 2022 - Python
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. …
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Jan 1, 2023 - Python
Annotate PICRUSt2 functional IDs (KO, EC, Pfam, etc.) using description mapfiles
bioinformatics metagenomics microbiome ec 16s qiime functional-annotation pfam mothur ko picrust2 amplicon-data pathway-annotation amplicon-seq
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Jul 14, 2025 - Shell
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Nov 8, 2018 - Python
Find NLR hmms in protein sequences.
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Apr 10, 2024 - Shell
A deepchain-app to predict protein family 🔬
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May 12, 2021 - Jupyter Notebook
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.
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Apr 8, 2025 - Common Workflow Language
Method for retrieving and visualising the protein domains of any protein coding isoform and of different genomes. Enables joint visualisations representing alternative splicing events.
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Apr 14, 2022 - R
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