Wenchao Zhang comments

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                                            Wenchao Zhang

vg index command was killed

Hi, jltsiren, Thanks for your reply. Essentially, I am interested in using the prebuilt graph ( hopefully to use 1000GPlons_hs38d1.vg , and 1000GPlons_hs38d1.xg ) to call SV from my short...

vg index command was killed

Hi, jltsiren, Many thanks for your reply.

OSError: [Errno 5] Input/output error

BTW, I run LongQC at LSF cluster. And the version is : LongQC 1.2.0c Wish to hear from you.

OSError: [Errno 5] Input/output error

Hi, Yoshinori, Many thanks for your reply. Yes, our data is reads.bam from Pacbio Sequel. I can use bam2fastq to convert the reads.bam to .fastq. For some small size file,...

Always report ERROR: path to the matrixfile is not valid.

@PPWEST522 , No, no one help me. Already give up.

Could you recommend some tools/platform to directly generate the SV breakpoints from Hi-C data, and can be used by NeoLoopFinder?

Thanks. Hic_breakfinder require three separated files. Whether it can only need one Hic .cool file? just as the calculate_cnv in NeoLoopFinder did? I only have the .cool file.