NOTE: This stuff can look messy, mostly because it is; it scares me too. This page assumes you already have some familiarity with working at the command line.
For a while, this was also kind of a huge pain to install on some systems. Getting all Alteromonas assembly accessions e. I typically do this part using bit-dl-ncbi-assemblies from my Bioinf Tools after getting the accessions like in the examples above.
Note the change in the -name parameter between those two. Two places to look are with the einfo -dbs command and at this site here. Getting only unique sequences from the Identical Protein Groups database. You can also get this link directly, by using Chrome's developer tools F12 , viewing the Network tab, then loading the page in 1.
Sorry, I can't post a comment with my reputation score. However, your command is downloading all sequences from the input file into a single fasta file. I believe that if you have a big bunch of sequences, it could be a little bit tricky after to manipulate that kind of file. Just by curiosity, do you have a trick to create one sequence per file using efetch? Sign up to join this community.
The best answers are voted up and rise to the top. Stack Overflow for Teams — Collaborate and share knowledge with a private group. Create a free Team What is Teams? Learn more. Ask Question. Asked 2 years ago. Ask Question. Asked 5 years, 6 months ago. Active 5 years, 6 months ago. Viewed times.
Add a comment. Active Oldest Votes. Maximilian Peters Maximilian Peters Sign up or log in Sign up using Google. Sign up using Facebook.
Your basket is currently empty. UniParc The UniProt Archive UniParc is a comprehensive and non-redundant database that contains most of the publicly available protein sequences in the world. Proteins may exist in different source databases and in multiple copies in the same database. UniParc avoided such redundancy by storing each unique sequence only once and giving it a stable and unique identifier.
0コメント