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BWA -q soft clipping: Which alignment quality threshold to choose?
I wish to align to human genome samples sequenced in a Illumina HiSeq 4000. Most reads (single end) are between 20-40bp long, clean from adaptors. The...Last edited by Eurioste; 01-12-2018, 07:56 AM. -
Repeat masking
Hi everyone,
We have whole genome data from a number of tumour-normal pairs, and are looking at our score distributions for somatic changes.... -
Tophat and Repeated Sequences
My PI and I have been wondering what exactly Tophat does with repeated sequences from a fastq file. Does it merely throw them away, or does it take the...
