User: H.Hasani

gravatar for H.Hasani
H.Hasani580
Reputation:
580
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Trusted
Location:
Freiburg, Germany
Last seen:
2 days, 23 hours ago
Joined:
2 years, 6 months ago
Email:
h*************@yahoo.com

Posts by H.Hasani

<prev • 137 results • page 1 of 14 • next >
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Comment: C: Detection of SNPs
... Exactly, it wasn't quite clear in the question. I believe guillaume.rbt has given you the correct answer. ...
written 5 days ago by H.Hasani580
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Answer: A: Detection of SNPs
... I would simply use GATK [HaplotypeCaller ][1]with -L option [1]: https://software.broadinstitute.org/gatk/documentation/tooldocs/3.8-0/org_broadinstitute_gatk_tools_walkers_haplotypecaller_HaplotypeCaller.php ...
written 5 days ago by H.Hasani580
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Comment: C: use firehose_get to download TCGA data
... I'm not sure if this is the full list; there is also ***gistic*** which makes me wonder whatelse is missing. Moreover, it seems that some of the keywords were depricated. ...
written 7 days ago by H.Hasani580
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Comment: C: use firehose_get to download TCGA data
... hi, is there a way I can get more details about the `-tasks`? e.g. what is available? what the abbreviation are standing for? etc.. thanks ...
written 7 days ago by H.Hasani580
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Comment: C: COSMIC paired normal cell lines for somatic mutation calling
... maybe you should contact COSMIC, see [contact][1] [1]: http://cosmic@sanger.ac.uk ...
written 5 months ago by H.Hasani580
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Answer: A: In simple words - what is k-mer??
... Hi, k-mer can indicate low quality or contamination in your sequences. Usually you compute it by checking if there is a string of length **k** that occurs in the reads more than chance. Tools like [Fastqc][1] can also give you a visual representation to that and to what kind of sequence you see. Th ...
written 5 months ago by H.Hasani580
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Comment: C: Recognizing an organism which is combination of other organisms
... Sounds to me like a problem for phylogenetics .. don't know how much it will help you, but have tried clustering by conservation information? ...
written 10 months ago by H.Hasani580
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Comment: C: samtools view region
... Oh, I see your point now. ...
written 11 months ago by H.Hasani580
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Answer: A: functional variant discovery after GATK variant calling
... I'm all for [VEP][1] [1]:http://www.ensembl.org/info/docs/tools/vep/index.html ...
written 11 months ago by H.Hasani580
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Comment: C: samtools view region
... could you point out where did you read that? when it comes to intersection it does not matter which end is obtained by the given list of intervals (at least that's what they say specifically in case of paired-end reads). ...
written 11 months ago by H.Hasani580

Latest awards to H.Hasani

Popular Question 5 weeks ago, created a question with more than 1,000 views. For How to Specify Genome Build in MutSigCV Input ?
Popular Question 6 weeks ago, created a question with more than 1,000 views. For How to Specify Genome Build in MutSigCV Input ?
Popular Question 12 weeks ago, created a question with more than 1,000 views. For How to Specify Genome Build in MutSigCV Input ?
Scholar 11 months ago, created an answer that has been accepted. For A: csv into genome browser
Scholar 11 months ago, created an answer that has been accepted. For A: csv into genome browser
Commentator 14 months ago, created a comment with at least 3 up-votes. For A: How many SNPs are sufficiant for covering?
Centurion 19 months ago, created 100 posts.
Voter 23 months ago, voted more than 100 times.
Commentator 24 months ago, created a comment with at least 3 up-votes. For A: How many SNPs are sufficiant for covering?
Commentator 2.0 years ago, created a comment with at least 3 up-votes. For A: How many SNPs are sufficiant for covering?
Supporter 2.3 years ago, voted at least 25 times.
Commentator 2.5 years ago, created a comment with at least 3 up-votes. For A: How many SNPs are sufficiant for covering?
Scholar 2.5 years ago, created an answer that has been accepted. For A: How many SNPs are sufficiant for covering?
Teacher 2.5 years ago, created an answer with at least 3 up-votes. For A: How many SNPs are sufficiant for covering?

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