pfam
There are 0 repository under pfam topic.
refresh-bio / FAMSA
Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)
Language:C 141diegozea / MIToS.jl
A Julia package to analyze protein sequences, structures, and evolutionary information
Language:Julia 73biomadeira / BioDownloader
📦 A Command Line Tool for downloading protein structures, sequences and MSAs
Language:Python 9- Language:Jupyter Notebook 5
bateman-research / clustering-ssn
Scripts to calculate sequence similarity networks (SSNs) and clustering of protein sequences.
Language:R 4ecolell / pfamserver
PFAM's micro service to assist to Mistic2.
Language:Python 3- Language:Julia 2
JuliaGol / PARS
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. One of the advantages of this package is the easy switch to other databases by translation of accession numbers. All of these features enable to make a detailed analysis of proteins or RNA families and deal with large datasets.
Language:Python 2pearcetm / jsproteinmapper
Interactively explore the relationship between a variant of interest, protein structure, and previously reported variants.
Language:JavaScript 2rubenchazarra / Transcript-Protein-Domain-Mapper
Method for retrieving and visualising the protein domains of any protein coding isoform and of different genomes. Enables joint visualisations representing alternative splicing events.
Language:R 2theomeb / deepchain-app-pfam-32.0
A deepchain-app to predict protein family :microscope:
Language:Jupyter Notebook 2- Language:Shell 1
HrishiDhondge / CroMaSt
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.
Language:Common Workflow Language 1- Language:Python 1
- Language:Python 1
- Language:C 0
littleblackfish / c-di-GMP
Mapping domain co-occurrence networks with emphasis on c-d-GMP binding domains.
Language:Jupyter Notebook 0michalbukowski / pfam-genomes
Snakemake pipeline for searching genomic sequences for those encoding proteins containing domains of choice
Language:Python 0- Language:Jupyter Notebook 0
- Language:Python
eriksjolund / compress-pfam-data-benchmark-zstd
Minimal benchmark test to compare zstd (zstandard) compression with gzip for the datafile Pfam-A.full.gz
MuthusaravananS / phylogeny-tree-with-MSA-and-Domain
The script will generate and display the phylogeny tree, with MSA and domain distribution labels assigned to the tree leaves.
Language:Python- Language:Python
- Language:Shell
- Language:R
