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Hi
I used TopHat 1.1.4 for M. musculus(UCSC mm9) data. when I used cufflinks,there is error "> Processing Locus chrM:0-16294 [************************ ] 97%terminate called after throwing an instance of 'std::bad_alloc'
what(): std::bad_alloc
Aborted"
when I used cuffdiff, the results of cds.diff, cds_exp.diff, cds.fdkm_tracking were empty. I think there is probably error about reference gtf about mm9.
I used "1) Go to UCSC table browser
2) Select mouse genome assmbly mm9
3) Select Genes and Gene Prediction Tracks in the Group section
4) Select the Ensemble Genes track
5) Under output format select GTF
6) Give the output file a name
7) Get output "
but the gtf didn't right for cuffcompare. so I selected Refgene Genes track(4))parameter, however, cds* is empty.
Thank everyone reply.
I used TopHat 1.1.4 for M. musculus(UCSC mm9) data. when I used cufflinks,there is error "> Processing Locus chrM:0-16294 [************************ ] 97%terminate called after throwing an instance of 'std::bad_alloc'
what(): std::bad_alloc
Aborted"
when I used cuffdiff, the results of cds.diff, cds_exp.diff, cds.fdkm_tracking were empty. I think there is probably error about reference gtf about mm9.
I used "1) Go to UCSC table browser
2) Select mouse genome assmbly mm9
3) Select Genes and Gene Prediction Tracks in the Group section
4) Select the Ensemble Genes track
5) Under output format select GTF
6) Give the output file a name
7) Get output "
but the gtf didn't right for cuffcompare. so I selected Refgene Genes track(4))parameter, however, cds* is empty.
Thank everyone reply.