I am presently involved in hybrid assembly and want to map my SOLiD reads against ROCHE contigs (length more than 1000bp). I approach is to map the reads with corona_lite, but facing problem with the cmap file. I found a small paragraph regarding this particular situation in corona_lite documentation but it is not that illustrative. Usually for mapping against human genome we take cmap as follows:
1 1 path to reference for each chr. path to the double encoded file
But for a draft genome i am confused. it tried with this following approach but i failed. i present cmap that i tried was:
1 contig0001 path to the multifasta contig file
Any help and guidance will be appreciable.
with regards,
saha
1 1 path to reference for each chr. path to the double encoded file
But for a draft genome i am confused. it tried with this following approach but i failed. i present cmap that i tried was:
1 contig0001 path to the multifasta contig file
Any help and guidance will be appreciable.
with regards,
saha
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