Open jingyayeah opened 8 years ago
Hi,
I guess some reads in your bam/sam file might map to multiple positions.
Best, Qing
2016-06-07 1:37 GMT-07:00 jingyayeah notifications@github.com:
command: giremi -f Zea_mays.B73_RefGen_v2.genome.fa -l Input_for_RNA_edit.txt -o out.res accepted_hits.bam
Error: [mpileup] 1 samples in 1 input files error:Can't find snv in ss!i
head Input_for_RNA_edit.txt
chr1 6742 6743 GRMZM5G888250 1 - chr1 6748 6749 GRMZM5G888250 1 - chr1 6849 6850 GRMZM5G888250 1 - chr1 6890 6891 GRMZM5G888250 1 - chr1 6983 6984 GRMZM5G888250 1 - chr1 7034 7035 GRMZM5G888250 1 - chr1 7079 7080 GRMZM5G888250 1 - chr1 7796 7797 GRMZM5G888250 1 - chr1 8995 8996 GRMZM5G888250 1 - chr1 9098 9099 GRMZM5G888250 1 -
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Hi,Qing I have some questions about mapping. Following the article,the unbiased mapping is mapping each end of the paired-end reads to the genome and a dual-filtering scheme is used,so my questions is:
Best, Wang
Hi,Qing
I get the same problem when my bam/sam file filter out multiple positions. (Because I use the bam file with another snv list successful )
Is there some other reasons ?
Best,
Wang
command: giremi -f Zea_mays.B73_RefGen_v2.genome.fa -l Input_for_RNA_edit.txt -o out.res accepted_hits.bam
Error: [mpileup] 1 samples in 1 input files error:Can't find snv in ss!i
head Input_for_RNA_edit.txt
chr1 6742 6743 GRMZM5G888250 1 - chr1 6748 6749 GRMZM5G888250 1 - chr1 6849 6850 GRMZM5G888250 1 - chr1 6890 6891 GRMZM5G888250 1 - chr1 6983 6984 GRMZM5G888250 1 - chr1 7034 7035 GRMZM5G888250 1 - chr1 7079 7080 GRMZM5G888250 1 - chr1 7796 7797 GRMZM5G888250 1 - chr1 8995 8996 GRMZM5G888250 1 - chr1 9098 9099 GRMZM5G888250 1 -