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pfam

Here are 26 public repositories matching this topic...

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

  • UpdatedSep 18, 2024
  • C++

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

  • UpdatedNov 21, 2017
  • Python

Co-occurrence of enzyme domains

  • UpdatedSep 16, 2020
  • Jupyter Notebook

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

  • UpdatedMay 14, 2021
  • R

PFAM's micro service to assist to Mistic2.

  • UpdatedFeb 15, 2023
  • Python

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

  • UpdatedApr 14, 2022
  • R

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

  • UpdatedApr 17, 2019
  • JavaScript

Julia package to interact with the Pfam database.

  • UpdatedSep 2, 2024
  • Julia

A deepchain-app to predict protein family 🔬

  • UpdatedMay 12, 2021
  • Jupyter Notebook

Set of tools for protein sequence enrichment and protein domain finding

  • UpdatedJun 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. …

  • UpdatedJan 1, 2023
  • Python

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.

  • UpdatedJun 20, 2023
  • Common Workflow Language

Find NLR hmms in protein sequences.

  • UpdatedApr 10, 2024
  • Shell

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

  • UpdatedMay 22, 2023
  • Python

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

  • UpdatedMay 3, 2017
  • Jupyter Notebook

Protein Family Annotator

  • UpdatedMar 17, 2023
  • C

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

  • UpdatedSep 14, 2024
  • Python

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