User: elisheva

gravatar for elisheva
elisheva70
Reputation:
70
Status:
Trusted
Location:
Israel
Last seen:
5 days, 3 hours ago
Joined:
2 years, 3 months ago
Email:
e***********@gmail.com

undergraduate bioinformatics student

Posts by elisheva

<prev • 101 results • page 1 of 11 • next >
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Comment: C: Customising bedtools shuffle command
... Could you please upload some lines of your file? So it will be easier to understand what exactly do you want. ...
written 14 days ago by elisheva70
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Comment: C: Finding exons and introns sequences
... of course not. I am looking only on mammals. ...
written 3 months ago by elisheva70
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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 3 months ago by elisheva70
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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 3 months ago by elisheva70
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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 3 months ago by elisheva70
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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 3 months ago by elisheva70 • updated 3 months ago by vkkodali910
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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 5 months ago by elisheva70
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Comment: C: bedtools intersect issue
... I am using version: v2.26.0 ...
written 5 months ago by elisheva70
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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 5 months ago by elisheva70
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Comment: C: bedtools intersect issue
... Yes, I know, but that what I want to get eventually. ...
written 5 months ago by elisheva70

Latest awards to elisheva

Popular Question 14 days ago, created a question with more than 1,000 views. For Best way to processing huge fasta files using python.
Centurion 3 months ago, created 100 posts.
Popular Question 4 months ago, created a question with more than 1,000 views. For Best way to processing huge fasta files using python.
Popular Question 5 months ago, created a question with more than 1,000 views. For Best way to processing huge fasta files using python.
Popular Question 6 months ago, created a question with more than 1,000 views. For Best way to processing huge fasta files using python.
Great Question 8 months ago, created a question with more than 5,000 views. For needleman-wunsch algorithm on python
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Popular Question 14 months ago, created a question with more than 1,000 views. For find ORF in sequence python
Popular Question 21 months ago, created a question with more than 1,000 views. For needleman-wunsch algorithm on python

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