MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.
@cutpatel please help in TBjoin
I have successfully analyzed more than 200 samples from multiple TBfull steps, each sample is located in its separate folder starting from 700 to 900. I am sorry but I can't write samples.txt file for TBjoin. Some of my files of sample 724 are
/724/Called/724_ERR3335724.gatk_position_variants_cf4_cr4_fr75_ph4_outmode000.tab
/724/Called/724_ERR3335724.gatk_position_uncovered_cf4_cr4_fr75_ph4_outmode000.tab
/724/Position_Tables/724_ERR3335724.gatk_position_table.tab
cutpatel
commented
3 years ago
@cutpatel please help in TBjoin I have successfully analyzed more than 200 samples from multiple TBfull steps, each sample is located in its separate folder starting from 700 to 900. I am sorry but I can't write samples.txt file for TBjoin. Some of my files of sample 724 are /724/Called/724_ERR3335724.gatk_position_variants_cf4_cr4_fr75_ph4_outmode000.tab /724/Called/724_ERR3335724.gatk_position_uncovered_cf4_cr4_fr75_ph4_outmode000.tab /724/Position_Tables/724_ERR3335724.gatk_position_table.tab