I am using CNVnator recently, preparing to call CNV in a 200 samples with 6X average coverage population, here is the command I used:
cnvnator -root m.root -genome hg19 -chrom 22 -tree 210099.chr22.bam 210103.chr22.bam
cnvnator -root m.root -genome hg19 -chrom 22 -d /dir_contain_chr22.fa -his 500
cnvnator -root m.root -chrom 22 -stat 500
cnvnator -root m.root -chrom 22 -partition 500
cnvnator -root m.root -chrom 22 -call 500
all command up goes well, some call set I can got too,
but while I tried
cnvnator -root m.root -chrom 22 -genotype 500
and then type chr22:1-200
heres what I got :
Can't find directory 'bin_1000'.
Can't find directory 'bin_1000'.
Genotype chr22:1-200 210099.chr22.root 0 -1
nomatter bin size I type , the programe could not found bin_1000.
Could guys give any suggestion? thanks so much
cnvnator -root m.root -genome hg19 -chrom 22 -tree 210099.chr22.bam 210103.chr22.bam
cnvnator -root m.root -genome hg19 -chrom 22 -d /dir_contain_chr22.fa -his 500
cnvnator -root m.root -chrom 22 -stat 500
cnvnator -root m.root -chrom 22 -partition 500
cnvnator -root m.root -chrom 22 -call 500
all command up goes well, some call set I can got too,
but while I tried
cnvnator -root m.root -chrom 22 -genotype 500
and then type chr22:1-200
heres what I got :
Can't find directory 'bin_1000'.
Can't find directory 'bin_1000'.
Genotype chr22:1-200 210099.chr22.root 0 -1
nomatter bin size I type , the programe could not found bin_1000.
Could guys give any suggestion? thanks so much
Comment