databases depended by MuSic
Should I by myself download the databases,cosmic and pfam for example,
or these will be downloaded when install?
genome
• 1,747 views
•
link
written
by
naruto1nrt •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Kraken2 database
written by Christopher •Hello everyone, today I found myself thinking about something. I'm new to the field of bioinformatics and I'm running some analyses in Kraken2, Bracken, and …
-
Can not find active_site.dat.gz in pfam ftp and got perl error Use of uninitialized value $fam_id i…
written by 846800562 •well, when I followed the Readme to install Pfam_scan, **I couldn't find active_site.dat.gz in Pfam's ftp**. In every post I check , it illustrated the …
-
Where can I download ALL pfam flat-file annotations?
written by O.rkaI tried downloading the following: ftp://ftp.ebi.ac.uk/pub/databases/Pfam/mappings/pdb_pfam_mapping.txt but it's missing a huge number of PFAM ids. For example, `PF13276` isn't in there. Is there another place …
-
Filtering HmmScan Domain Results
written by hewaholax •Hi there, Nowadays, I am trying to work on finding the protein domains by using hmmscan (HMMER 3.2.1). So, I have a file that multiple …
-
why does Pfam-A.fasta not contain all the sequences of a family?
written by ifishlin324 •Hello everyone, I'm working on collecting sequences of each pfam family. And I realize **Pfam-A.fasta** (ftp://ftp.ebi.ac.uk/pub/databases/Pfam/releases/Pfam28.0/relnotes.txt) consists of sequences in fasta format with PFAM accession, …
-
Sequence extraction from PFAM db with accession ID
written by venuHello, I have downloaded the local pfam data base from ftp://ftp.ebi.ac.uk/pub/databases/Pfam/current_release. There are two databases **1) Pfam-A.fasta.gz 2) Pfam-A.full.gz** . The first one consist of …
-
MuSic Pfam file path in Linux RHEL
written by Nitish Mishra •Hi, I am trying to use MuSic for pfam annotation on **Linux RHEL system**. I already downloaded pfam, cosmic-omim data ([genome-databases_1-1.tar.gz][1]) in my home directory …
-
Public Api For Sanger'S Cosmic Databases
written by woemler<p>Does there exist a public API for retrieving records from Sanger's COSMIC databases? I have a data set which has thousands of samples annotated only …
-
How To Set Db Path For Music
written by lili •<p>I'm trying to run MuSiC play but get the following error:</p> <p>ERROR: Error running genome music pfam: Cannot find the pfam db path. at /gnet/resfiles3/resapps/apps/music/0.4.1-1/sles11sp2/lib/perl5/Genome/Model/Tools/Music/Pfam.pm …
-
How To Set Registry File To Access A Online Db Like Cosmic Or Ensembl
written by Manjulapra •<p>Hi all, I am very new both to perl and BioMart. I am stuck with the configuration or the registry file. Can anyone help me …