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Similar Threads
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| Thread | Thread Starter | Forum | Replies | Last Post |
| tophat2 problem: No such file: left_kept_reads.m2g_um.candidates_and_unspl.bam | tgenahmet | Bioinformatics | 2 | 05-24-2012 02:42 PM |
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| getting read quality out of a bam file | blu78 | Bioinformatics | 0 | 07-06-2010 07:39 AM |
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04-26-2012, 11:40 AM
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#1 |
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Junior Member
Location: Montreal Join Date: Sep 2009
Posts: 2
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Tophat2: bam file has no quality sequences for a lot of reads
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04-26-2012, 02:40 PM
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#2 |
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Senior Member
Location: Phoenix, AZ Join Date: Mar 2010
Posts: 279
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Why are your read lengths different. Looks like the two that are the same size have proper quality strings
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04-26-2012, 04:08 PM
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#3 |
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Member
Location: NY Join Date: Mar 2009
Posts: 11
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I encountered the same problem.
Problem was alleviated by switching back to 1.4.1. |
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04-27-2012, 05:10 AM
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#4 |
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Junior Member
Location: Montreal Join Date: Sep 2009
Posts: 2
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My reads were filtered for quality. But the same problems happens without filtering. And version 1.4 corrects the problem as mentionned by pzumbo.
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04-28-2012, 07:47 AM
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#5 |
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Member
Location: USA Join Date: Apr 2009
Posts: 36
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I'm having the same issue with tophat2. I just posted over here: http://seqanswers.com/forums/showpos...66&postcount=4
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| bam, tophat |
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