Problem downloading BAM file
I am having issue downloading my bam files of human exome data. I am getting error: aligned reads are not sorted. error code 3 and the sample files asked for GRCH37g1k and I managed to succesfully download that track.
I am having issue downloading my bam files of human exome data. I am getting error: aligned reads are not sorted. error code 3 and the sample files asked for GRCH37g1k and I managed to succesfully download that track.
Thank you Jami for that information. I will work on trying to sort them.
Hi Alexandra,
Unfortunately GenomeBrowse is not able to handle unsorted BAM files. We recommend using SAMtools or a similar BAM tool to have the file sorted.
Once the file is sorted GenomeBrowse will be able to successfully compute index and coverage files for viewing the BAM file since you have download the corresponding reference sequence.
Let us know if you have any further questions or issues.
Thanks, Jami...
Questions should be tagged FeatureRequest for asking about a non-existing feature or proposing a new idea, GeneralInquiry for general questions about GenomeBrowse or directions on how to do something, or RanIntoProblem if you want to report an issue or had difficulty getting to an expected result.
Asked: 2013-02-25 10:18:53 -0600
Seen: 391 times
Last updated: Feb 25 '13
