Dear,
I try to assemble a genome with 2 paired-end sets (300, 500) and 2 mate-pair sets (2K, 5K).
The insert size histograms, the intermediate results of ABySS (1.2.5), shows odd distribution of insert size.
Paired-end sets show reasonable peaks, however the peaks of the mate-pair sets are placed between 0 to 500.
To check the mate-pair reads, I estimated the insert size by mapping them to a reference genome. And we confirmed that almost of the reads were mapped within reasonable range.
I think that ABySS may not predict insert size for mate-pair reads.
I need your comments.
P.s.) The plot of the histograms is attached. Please refer it.
I try to assemble a genome with 2 paired-end sets (300, 500) and 2 mate-pair sets (2K, 5K).
The insert size histograms, the intermediate results of ABySS (1.2.5), shows odd distribution of insert size.
Paired-end sets show reasonable peaks, however the peaks of the mate-pair sets are placed between 0 to 500.
To check the mate-pair reads, I estimated the insert size by mapping them to a reference genome. And we confirmed that almost of the reads were mapped within reasonable range.
I think that ABySS may not predict insert size for mate-pair reads.
I need your comments.
P.s.) The plot of the histograms is attached. Please refer it.
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