User: Titus

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Titus100
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100
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2 months, 2 weeks ago
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Posts by Titus

<prev • 33 results • page 1 of 4 • next >
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Comment: C: CNV detection techniques, algorithms, applications ...
... I think the figure 1 is really clear about the strategies , what did you not understand ? ...
written 3 days ago by Titus100
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Comment: C: CNV detection techniques, algorithms, applications ...
... Hi , May be you already see this paper but it really helped me to understand the problematic around CNV : https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-14-S11-S1 ...
written 4 days ago by Titus100
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VEP and splicing site region parameters
... Hi , I'm using VEP (in local query database) to annotate my vcf in my pipeline. I was looking for parameter concerning the distance base from the splicing site used by VEP for call a variant as splicing effect ? I didn't found the information in the doc. Best Tristan ...
snp written 4 days ago by Titus100
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Comment: C: How to get HGVS notation of protein form genome snp vcf
... Hi, What do you mean ? Do you want HGVS annotation of protein but for an other organism than Human ? ...
written 6 days ago by Titus100
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Comment: C: Somatic variant call
... Hi , At the end you have more stringency with Mutect2 than with varscan, that is normal because i think you don't have same default parameters. The method to reduce your variants are : -cut off with depth coverage (number reads to accept or not a somatic variant, you should consider the strand bias ...
written 7 days ago by Titus100
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Comment: C: Exom target read depth of TCGA WES data?
... Thank you for the answer :) Then your question is strange for me if you are analysing sequencing data and you don't know the depth information :) By the way i m working on cancer data and to find variation we need 500X to find genomic variation if it helps. ...
written 11 days ago by Titus100
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Comment: C: Which tool for detection of VNTR?
... Well i think it's possible to do something with standard tools (bwa,samtools etc) and the most important in your case is the design of your sequencing i think you will need to cover borders of the VNTRs you want to analyze. ...
written 12 days ago by Titus100
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Comment: C: Exom target read depth of TCGA WES data?
... Hi , May be a newbie question but what is TCGA samples ? ...
written 12 days ago by Titus100
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Comment: C: Which tool for detection of VNTR?
... What kind of sequencing do you have ? ...
written 12 days ago by Titus100
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Comment: C: what is the meaning of 'Species ID' in targetscan?
... Can you give an example ? ...
written 13 days ago by Titus100

Latest awards to Titus

Scholar 27 days ago, created an answer that has been accepted. For C: finding homologs in human
Teacher 27 days ago, created an answer with at least 3 up-votes. For C: where to find a list of often mutated or lost regions in cancers
Scholar 4 weeks ago, created an answer that has been accepted. For C: finding homologs in human

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