User: joltex

joltex • 0

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Posts by joltex

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Answer: A: Find number of reads that contain at least 1 sequence from a list of sequences

... In case anyone else is interested in doing something similar, I ended up using a program called '[cutadapt][1]' which is meant as a trimmer but allows you to input a fasta file of sequences to search for in your reads and to specify a max percent errors. It outputs some really nice stats including w ...

written 3.6 years ago by joltex • 0

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Find number of reads that contain at least 1 sequence from a list of sequences

... I have MiSeq fastq's and I would like to know how many reads in each fastq contain at least one sequence from a list of ~15 short (15bp) sequences. Or, conversely, how many reads don't contain any of the sequences in the list. I want to allow for a couple of mismatches and potentially an indel. I'v ...

ngs alignment sequencing written 3.6 years ago by joltex • 0

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Scholar 3.6 years ago, created an answer that has been accepted. For A: Find number of reads that contain at least 1 sequence from a list of sequences