TBProfiler v2.7.4

• Add --reporting_af to collate function
• Change default caller to bcftools

TBProfiler v2.7.3

• Correct version to 2.7.3
• Add --no_flagstat option

TBProfiler v2.7.2

• Add --no_trim option to skip read trimming
• Fix bug in itol configs
• Fix permissions issue with bwa index creation

TBProfiler v2.7.1

• Fixed issue with fasta profiler
• Fixed issue with #60

TBProfiler v2.7

• Add fasta_profiler function

TBProfiler v2.6.1

Updates:

• Allow for databases to be stored anywhere (#52)
• Bug fix (#55)
• Add --call_whole_genome option to perform variant calling on whole genome

TBProfiler v2.6

Change log

• Allow for external DB to be used
• Minor bugfixes

TBProfiler v2.5

Change Log

• Change default variant caller to GATK

Bug fixes

• Fixed issue with .variants.txt file #46 #44

TBProfiler v2.4

add version code and fix reprofile bug

TBProfiler v2.3

Change Log

• Added --seqname option to update_tbdb to allow for other chromosome names (but still the same sequence) to be used
• Added --af to filter out calls by frequency in the reads
• Added --reporting_af to allow for frequency cutoff when generating resistance table
• Changed txt format to report a drug resistance variant section with one line per variant