Moderator: Asaf

gravatar for Asaf
Asaf4.0k
Reputation:
3,960
Status:
Trusted
Location:
Israel
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Google Scholar Page
Last seen:
an hour ago
Joined:
5 years, 10 months ago
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Posts by Asaf

<prev • 432 results • page 1 of 44 • next >
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Comment: C: Can we do between-sample normalization like deseq/TMM on RPKM?
... The problem is not the normalization, you can normalize RPKM in the same method DESeq uses. The DESeq model assumes the input is number of reads, it's pretty useless without it. Can't you get the raw reads? ...
written 6 days ago by Asaf4.0k
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Comment: C: High throughput RNA secondary structure predictor
... You can install it locally and run all sequences in batch ...
written 6 days ago by Asaf4.0k
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Comment: C: High throughput RNA secondary structure predictor
... RNAfold of Vienna package, mfold etc. ...
written 6 days ago by Asaf4.0k
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Answer: A: how to extract rows present in file1 and not in file 2
... Get all unique genes: cat file1.tx file2.txt |sort |uniq -c |awk '$1==1' Get genes in file 1 not in file2: grep -w -f file2 -v file1 ...
written 9 days ago by Asaf4.0k
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Comment: C: what is the difference between bioinformatician and Postdoc in Bioinformatics
... Each case is different but that's what I would expect. Sometimes you can get on publications but not in the from row. ...
written 9 days ago by Asaf4.0k
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Answer: A: what is the difference between bioinformatician and Postdoc in Bioinformatics
... I would expect the difference to be around the question: are you conducting your own research or doing other people's analyses. A postdoc position should be your own research ,publications etc and a job as a bioinformatician to support others research. There are, however, exceptions to this. There a ...
written 9 days ago by Asaf4.0k
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Comment: C: what does miRNA* mean?
... It's a bit deprecated these days and miRNAs are referred to as 5'-miRNA and 3'-miRNA since it was hard to determine which side is the active one. ...
written 10 days ago by Asaf4.0k
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Comment: C: Many to Many alignment of Large number of sequences
... Two multi-fasta files, one is the query, the other is the database (should format it with makeblastdb first) and then run one against the other ...
written 10 days ago by Asaf4.0k
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Comment: C: Many to Many alignment of Large number of sequences
... You can use BLAST (or DIAMOND) with outfmt 6 (tabular) and then count the number of hits with sort & uniq, e.g.: cut -f 2 output.txt |sort |uniq -c ...
written 10 days ago by Asaf4.0k
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Comment: C: How to calculate RPM (reads per million mapped reads)?
... Are you comparing the circRNAs to their native form? ...
written 11 days ago by Asaf4.0k

Latest awards to Asaf

Scholar 9 days ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Teacher 19 days ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Popular Question 3 months ago, created a question with more than 1,000 views. For Counting reads for gene in bacterial genomes
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Popular Question 5 months ago, created a question with more than 1,000 views. For What Do You Waste Your Time On
Scholar 6 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 6 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 6 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 6 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 6 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 6 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Scholar 7 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Great Question 10 months ago, created a question with more than 5,000 views. For What Do You Waste Your Time On
Teacher 11 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Popular Question 12 months ago, created a question with more than 1,000 views. For What Do You Waste Your Time On
Teacher 15 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Commentator 15 months ago, created a comment with at least 3 up-votes. For C: What to do after an genome assembly?
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: Find Enriched Function In Go Terms
Scholar 18 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 20 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?

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