User: vkgaur25

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vkgaur250
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Posts by vkgaur25

<prev • 10 results • page 1 of 1 • next >
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Comment: C: Making reference fasta file from aligned sam file or bed file
... Oh That makes sense. Thanks. Any suggestions on masking? ...
written 1 day ago by vkgaur250
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Making reference fasta file from aligned sam file or bed file
... I have cancer panel data targeting 212 amplicons. I want to use a reference genome that only contains sequences from these 212 amolicons for mapping instead of whole human genome. I think I can create a bed file from amplicon coordinates and fetch sequences. Is that right approach becuase many amp ...
rna-seq written 2 days ago by vkgaur250 • updated 2 days ago by d-cameron1.5k
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Comment: C: Count the number of reads for multiple genomic locations on different (not all)
... This is what happens after no sleep at all. I am so stupid. Thanks a lot @genomax ...
written 2 days ago by vkgaur250
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Comment: C: Count the number of reads for multiple genomic locations on different (not all)
... I tried bedtools. Worked, Thanks ...
written 2 days ago by vkgaur250
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Comment: C: Count the number of reads for multiple genomic locations on different (not all)
... I am sorry , might sound silly but I am not finding upvote link. ...
written 2 days ago by vkgaur250
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Comment: C: Count the number of reads for multiple genomic locations on different (not all)
... That sounds promising. Thanks a lot. ...
written 2 days ago by vkgaur250
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Comment: A: Count the number of reads for multiple genomic locations on different (not all)
... Thanks a lot everyone ! :) ...
written 11 days ago by vkgaur250
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8 follow
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Count the number of reads for multiple genomic locations on different (not all) chromosomes
... I have a Illumina cancer panel data and after generating a bam file I want to find the total number of reads mapped to genome on some coordinates that I got from a bed file. I know that I can do that using samtools view while mentioning the exact position but I have 212 coordinates to look at and i ...
rna-seq written 12 days ago by vkgaur250 • updated 9 days ago by finswimmer1.5k
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Answer: A: Missing information on sex-linked chromosomes
... Yes Annotation file does contain miRNAs on Chr Y. ...
written 5 weeks ago by vkgaur250
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Missing information on sex-linked chromosomes
... Hi all, I have been provided an RNA-Seq data where I have to look for the miRNA/isomiRs with gender dependency. Although after applying DESeq I was able to get some isomiRs but I want to check on the miRNAs which are Y linked as theirs' isomiRs would hopefully be expressing exclusively with male sa ...
rna-seq written 5 weeks ago by vkgaur250

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