User: H.Hasani

gravatar for H.Hasani
H.Hasani610
Reputation:
610
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Trusted
Location:
Freiburg, Germany
Last seen:
17 hours ago
Joined:
2 years, 11 months ago
Email:
h*************@yahoo.com

Posts by H.Hasani

<prev • 143 results • page 1 of 15 • next >
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Answer: A: Bioinformatics terms that might be confusing for beginners
... Well, [Wikipedia][1] has a clear explanation for the Phred score! [1]: https://en.wikipedia.org/wiki/Phred_base_calling ...
written 23 days ago by H.Hasani610
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Comment: C: Interpretation of TCGA CNV data
... Hi, I used [Firehose][1] to download Gistic2 results. I have Level4 and the tables typically range between ` [-1.26300, 4.56500 ]`, I couldn't find any documentation explaining these numbers? i.e. I thought GISTIC ranges between -2 & 2? could you please help? [1]: http://firebrowse.org/ ...
written 9 weeks ago by H.Hasani610
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Comment: C: The outputs of GISTIC
... hi, were you able to find the answer to your question? ...
written 9 weeks ago by H.Hasani610
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Comment: C: error for barplot in enrichGO(clusterProfiler)
... I'm running into the same problem using simply `ggplot2` ... did you find a solution? ...
written 3 months ago by H.Hasani610
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Comment: C: Genotyping, genotype calling or SNP calling?
... Wouldn't you consider the notation given by current SNP callers [0/1,1/1,2/1...] as genotyping too? ...
written 3 months ago by H.Hasani610
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TCGA raw data (Level 1)
... Dear all, now that TCGA is closed, I was wondering if it is possible to obtain level 1 files. Those files were typically available via controled access. I tried [firehose][1] but I got only Level 3. I'm looking for SNP6 data (CEL files) and RNA (ideally fastq). In case not, could you please recomme ...
copy number rna-seq snp written 3 months ago by H.Hasani610
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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 months ago by H.Hasani610
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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 months ago by H.Hasani610
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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 5 months ago by H.Hasani610
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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 5 months ago by H.Hasani610

Latest awards to H.Hasani

Popular Question 4 months ago, created a question with more than 1,000 views. For How to Specify Genome Build in MutSigCV Input ?
Popular Question 6 months ago, created a question with more than 1,000 views. For How to Specify Genome Build in MutSigCV Input ?
Popular Question 6 months ago, created a question with more than 1,000 views. For How to Specify Genome Build in MutSigCV Input ?
Popular Question 7 months ago, created a question with more than 1,000 views. For How to Specify Genome Build in MutSigCV Input ?
Scholar 15 months ago, created an answer that has been accepted. For A: csv into genome browser
Scholar 16 months ago, created an answer that has been accepted. For A: csv into genome browser
Commentator 19 months ago, created a comment with at least 3 up-votes. For A: How many SNPs are sufficiant for covering?
Centurion 2.0 years ago, created 100 posts.
Voter 2.4 years ago, voted more than 100 times.
Commentator 2.4 years ago, created a comment with at least 3 up-votes. For A: How many SNPs are sufficiant for covering?
Commentator 2.4 years ago, created a comment with at least 3 up-votes. For A: How many SNPs are sufficiant for covering?
Supporter 2.7 years ago, voted at least 25 times.
Commentator 2.9 years ago, created a comment with at least 3 up-votes. For A: How many SNPs are sufficiant for covering?
Scholar 2.9 years ago, created an answer that has been accepted. For A: How many SNPs are sufficiant for covering?
Teacher 2.9 years ago, created an answer with at least 3 up-votes. For A: How many SNPs are sufficiant for covering?

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