Batch PFam search
I have a fasta sequence file with multiple protein entries. I want to find out which PFam domains do each of the sequence belong to along with the domain boundaries (in text format preferably for parsing). I have tried Batch PFam web search tool however it is taking way longer than usual. i have many such files and need to use it on a regular basis. Please help.
• 3,817 views
•
link
written
by
anuprabha.mandal •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Can I do a local BLASTp with a PFAM domain as query?
written by Gerardo •
-
Splitting a Protein Sequence in Domains
written by symela.lazaridi •
-
How do I get all sequences for one specific domain from Hmmer vs Pfam output that contains the resu…
written by emilyc •
-
How to parse HMMsearch domtblout, resolve overlaps & return PDA?
written by Anand Rao
-
Batch-retrieving protein domain sequences from InterPro
written by mucmvsthlm •
-
Matching Uniprot position to Pfam HMM position
written by agonic •
-
extracting domain regions from PDB
written by a.abnousi •
-
How to split protein tandem domains fasta sequnces to multiple single sequences?
written by astrozheng •
-
Dubious Pfam Domain Annotation Of A Protein
written by Pappu
-
How Can I Efficiently Parse Hmmer Results To Find Listed Domains And Their Architecture?
written by James Ashmore •
Download PfamScan from ftp://ftp.ebi.ac.uk/pub/databases/Pfam/Tools/ and use it from the command-line.