User: Titus

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Titus740
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740
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Posts by Titus

<prev • 222 results • page 1 of 23 • next >
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Comment: C: aligning to circular sequence
... Is it NGS data ? Because i did it on times on NGS data with bwa and to make this possible i just merge 2 references together .... ...
written 5 weeks ago by Titus740
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Comment: C: loaded a sorted bam file in IGV but I can't see anything
... To add information , i never be able to read the BAM (convert from the SAM output ) with IGV with this option. ...
written 5 weeks ago by Titus740
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Comment: C: question about isoform switching searching tools
... Is there any example of input data in the documentation ? you could make some first test to check if the software run in a good way. I don't see header in you input example and there is space lines . ...
written 5 weeks ago by Titus740
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Comment: C: question about isoform switching searching tools
... Hi , Can you give us your command line ? By the way the documentation don't gives java version and dependencies from links you gives. ...
written 5 weeks ago by Titus740
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Comment: C: Why do genes have multiple consequences for the same SNP?
... I m not sure to understand your question. But do you have information about processing of you data ? pipeline used may be ? ...
written 6 weeks ago by Titus740
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Comment: C: Why do genes have multiple consequences for the same SNP?
... As said @finswimmer that mean your data concerned only one transcript per genes. With some software you can filter results by consequences to conserved only mutation having a protein translation impact. ...
written 6 weeks ago by Titus740
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Comment: C: gene data preprocessing
... i think you should look at this https://www.biostars.org/p/75548/ . ...
written 6 weeks ago by Titus740
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Comment: C: VCF Output file column explanation
... The column K looks like SIFT score. This information come from the database you add in you command line for the annotation. ...
written 6 weeks ago by Titus740
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Comment: C: Tophat2 or STAR for IsoformSwitchAnalyzeR analysis
... Maybe i m wrong , but i understood that Salmon / Kallisto are not looking for isoform prediction , they just align against rna ref. ...
written 7 weeks ago by Titus740
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Comment: C: CNV and pseudogenes
... I think it's depends on your reads length and the size of homology you have between your gene and pseudogene. If you have NGS you tank load the data and look manually with [IGV][1] for example. [1]: https://software.broadinstitute.org/software/igv/ ...
written 8 weeks ago by Titus740

Latest awards to Titus

Popular Question 3 days ago, created a question with more than 1,000 views. For Looking for wig base coverage file for hg19
Commentator 12 months ago, created a comment with at least 3 up-votes. For C: BWA: Why paired reads mapped to different chromosome?
Commentator 14 months ago, created a comment with at least 3 up-votes. For C: BWA: Why paired reads mapped to different chromosome?
Centurion 14 months ago, created 100 posts.
Supporter 16 months ago, voted at least 25 times.
Appreciated 18 months ago, created a post with more than 5 votes. For C: BWA: Why paired reads mapped to different chromosome?
Commentator 18 months ago, created a comment with at least 3 up-votes. For C: BWA: Why paired reads mapped to different chromosome?
Rising Star 18 months ago, created 50 posts within first three months of joining.
Scholar 19 months ago, created an answer that has been accepted. For C: finding homologs in human
Teacher 19 months 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 20 months ago, created an answer that has been accepted. For C: finding homologs in human

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