User: elisheva

gravatar for elisheva
elisheva70
Reputation:
70
Status:
Trusted
Location:
Israel
Last seen:
6 days, 16 hours ago
Joined:
2 years, 7 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 4 months ago by elisheva70
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Comment: C: Finding exons and introns sequences
... of course not. I am looking only on mammals. ...
written 7 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 7 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 7 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 7 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 7 months ago by elisheva70 • updated 7 months ago by vkkodali1.1k
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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 9 months ago by elisheva70
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Comment: C: bedtools intersect issue
... I am using version: v2.26.0 ...
written 9 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 9 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 9 months ago by elisheva70

Latest awards to elisheva

Great Question 4 weeks ago, created a question with more than 5,000 views. For find ORF in sequence python
Popular Question 10 weeks ago, created a question with more than 1,000 views. For Best way to processing huge fasta files using python.
Epic Question 12 weeks ago, created a question with more than 10,000 views. For needleman-wunsch algorithm on 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.
Centurion 7 months ago, created 100 posts.
Popular Question 8 months ago, created a question with more than 1,000 views. For Best way to processing huge fasta files using python.
Popular Question 9 months ago, created a question with more than 1,000 views. For Best way to processing huge fasta files using python.
Popular Question 10 months ago, created a question with more than 1,000 views. For Best way to processing huge fasta files using python.
Great Question 12 months ago, created a question with more than 5,000 views. For needleman-wunsch algorithm on python
Popular Question 12 months ago, created a question with more than 1,000 views. For Writing a csv file python
Supporter 14 months ago, voted at least 25 times.
Popular Question 18 months ago, created a question with more than 1,000 views. For find ORF in sequence python
Popular Question 2.1 years ago, created a question with more than 1,000 views. For needleman-wunsch algorithm on python

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