User: bibaswan.ghoshal

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Posts by bibaswan.ghoshal

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Comment: C: Matching list of barcodes to specific bases to read2 in a paired end file
... Input files: sample1_R1.fastq.gz @NS500310:191:H3WFYBGX9:1:11101:10722:1034 1:N:0:GATCAG TATTANAGTTGCTGCAGTTAAAAAGCTCNTAGTTGGATCTTGGGAGCGGGCGGGCGGTCCGCCGCG + AAAAA#EEEEEEEEEEEEEEEEEEEEEE#EEEEEEEEEEEEEEE/EEEEEEEEEEEEEEE ...
written 6 months ago by bibaswan.ghoshal0 • updated 6 months ago by Pierre Lindenbaum118k
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Matching list of barcodes to specific bases to read2 in a paired end file
... Hi, I have a list of barcodes each 8nt long. I want to look for these barcodes in specific bases (11-18, 47-54, 89-96) of the read 2 sequences allowing 1 mismatch in each region and then filtering the reads that have these barcodes and then match them with the read 1. I tried at multiple programs ...
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Comment: C: Counting bases and create distance histogram
... yes the sequences are RNAseq ...
written 18 months ago by bibaswan.ghoshal0
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Counting bases and create distance histogram
... Hi, I am stuck with a problem in measuring the distance between end of alignment of one read to a Refseq gene and start of the polyA tail of the same gene. I have 100 reads per gene that has been already found to be aligned to that gene. Now I want to align them to the Refseq fasta and measure the ...
alignment sequence rna-seq sequencing written 18 months ago by bibaswan.ghoshal0

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