I am looking for a mapping software that can handle Genbank formatted files as input.
I plan on mapping 454 cDNA reads back to this reference so mappers that work on short reads exclusively are disqualified.
The best option I have so far is using CLC Bio but i won't tell me the locations of hits if a read maps to multiple places.
I would also love to expression values and the RNASeq tool in CLC will only map to coding regions. I am curious about intergenic regions.
Bummer...
Does anyone have any suggestions?
I plan on mapping 454 cDNA reads back to this reference so mappers that work on short reads exclusively are disqualified.
The best option I have so far is using CLC Bio but i won't tell me the locations of hits if a read maps to multiple places.
I would also love to expression values and the RNASeq tool in CLC will only map to coding regions. I am curious about intergenic regions.
Bummer...
Does anyone have any suggestions?
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