User: elisheva

gravatar for elisheva
elisheva70
Reputation:
70
Status:
Trusted
Location:
Israel
Last seen:
49 minutes ago
Joined:
2 years, 1 month ago
Email:
e***********@gmail.com

Posts by elisheva

<prev • 100 results • page 1 of 10 • next >
0
votes
2
answers
232
views
2
answers
Comment: C: Finding exons and introns sequences
... of course not. I am looking only on mammals. ...
written 6 weeks ago by elisheva70
0
votes
2
answers
232
views
2
answers
Comment: C: Finding exons and introns sequences
... Thank you for your response. But as I mentioned above, gff3 doesn't include introns coordinates for some reason. Therefore, I can't see how it will be helpfull. And one more thing, assuming I do have the coordinates and the complete genomes, I guess bedtools getfasta will more efficient for this cas ...
written 6 weeks ago by elisheva70
0
votes
2
answers
232
views
2
answers
Comment: C: finding exons and introns sequences
... I am working on 80 organisms from Ensembl db. So this is not practical to download their full genome. Besides, on their gff3/gtf files, there are no introns at all ): ...
written 6 weeks ago by elisheva70
0
votes
2
answers
232
views
2
answers
Comment: C: finding exons and introns sequences
... I tried it. But I have to say it's quite unclear for someone who is totally new to perl. Besides, I tried only to get transcript Ids of one chromosome and it takes about 3 minutes, so I guess for downloading full sequences it will take too much time. ...
written 6 weeks ago by elisheva70
4
votes
2
answers
232
views
2
answers
Finding exons and introns sequences
... Hello everybody!! I have to analyze exons' and intron's sequences of many organisms. My question is: what is the most efficient way to retrieve all those sequences in fasta format? Or in other words: which Database holds accessible information about e ...
genome ensembl sequence exon intron written 7 weeks ago by elisheva70 • updated 6 weeks ago by vkkodali660
0
votes
0
answers
242
views
0
answers
Comment: C: bedtools intersect issue
... That's really weird, and yes, for the example I posted I get an output as I posted either. ...
written 3 months ago by elisheva70
0
votes
0
answers
242
views
0
answers
Comment: C: bedtools intersect issue
... I am using version: v2.26.0 ...
written 3 months ago by elisheva70
0
votes
0
answers
242
views
0
answers
Comment: C: bedtools intersect issue
... I edited the post, but those are only the first 10 lines, actually, they have overlap, as you can see in the first result. ...
written 3 months ago by elisheva70
0
votes
0
answers
242
views
0
answers
Comment: C: bedtools intersect issue
... Yes, I know, but that what I want to get eventually. ...
written 3 months ago by elisheva70
0
votes
0
answers
242
views
0
answers
bedtools intersect issue
... Hi everyone! I have 2 bed files: A.bed chr1 1090377 1090381 1 1 + chr1 1090377 1090381 1 1 + chr1 1090415 1090419 1 1 + chr1 1090425 1090429 1 1 + chr1 1090442 1090446 1 1 - chr ...
bedtools intersect bed file written 3 months ago by elisheva70 • updated 3 months ago by Biostar ♦♦ 20

Latest awards to elisheva

Centurion 6 weeks ago, created 100 posts.
Popular Question 10 weeks ago, created a question with more than 1,000 views. For Best way to processing huge fasta files using python.
Popular Question 3 months ago, created a question with more than 1,000 views. For Best way to processing huge fasta files using python.
Popular Question 4 months ago, created a question with more than 1,000 views. For Best way to processing huge fasta files using python.
Great Question 6 months ago, created a question with more than 5,000 views. For needleman-wunsch algorithm on python
Popular Question 6 months ago, created a question with more than 1,000 views. For Writing a csv file python
Supporter 8 months ago, voted at least 25 times.
Popular Question 12 months ago, created a question with more than 1,000 views. For find ORF in sequence python
Popular Question 19 months ago, created a question with more than 1,000 views. For needleman-wunsch algorithm on python

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 799 users visited in the last hour