Hi everyone,
I've seen a few people doing ancient DNA work on this forum and I thought they might be able to help me out on a Bioinformatics question related to the analysis of an ancient DNA sample sequenced using Illumina HiSeq. Ive been following a protocol written by Kircher et al. (http://www.ncbi.nlm.nih.gov/pubmed/22237537) regarding the merging of paired end sequence data for small insert libraries. I have a library insert size of between 180-300bp and I'm working with read lengths of 100bp. Is this protocol appropriate for this project?
Alternatively, is it just easier to remove adaptors, quality trim and do single-read mapping rather than merging?
Cheers
I've seen a few people doing ancient DNA work on this forum and I thought they might be able to help me out on a Bioinformatics question related to the analysis of an ancient DNA sample sequenced using Illumina HiSeq. Ive been following a protocol written by Kircher et al. (http://www.ncbi.nlm.nih.gov/pubmed/22237537) regarding the merging of paired end sequence data for small insert libraries. I have a library insert size of between 180-300bp and I'm working with read lengths of 100bp. Is this protocol appropriate for this project?
Alternatively, is it just easier to remove adaptors, quality trim and do single-read mapping rather than merging?
Cheers
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