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Old 06-04-2017, 09:15 AM   #1
sagnikbanerjee15
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Location: Ames, Iowa, USA

Join Date: Jun 2017
Posts: 3
Default Align full length contigs instead of reads

Hello,

Splice aligners like HiSAT2 and STAR are optimised to map short reads (~100bp) to large genomes. I have assembled contigs available. I wish to align those contigs to the genomes. Do you think using HiSAT2 and STAR to align the contigs to a long genome will be a good choice? If not, could anyone suggest a better alternative?

Thank you
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