Tags

Tags give the ability to mark specific points in history as being important

  • 1.2

    93a1ea7c · 1.3 · 
    VERSION=1.2
+ MIN_SUBJECT_COVERAGE set to 0.9 for better accuracy
+ gaps are now used to compute the consensus sequence (many gaps can now lead to a N)
+ option -o is now non-mandatory
+ modified default option -m (100 instead of 50)
+ new option -n to limit the no. HTS reads
+ new option -F to write ouput sequence(s) in FASTQ format
+ updated summary reports (option -v)
+ improved overall speed
+ fixed bug when reading gziped files
+ fixed bug when reading multiple FASTA files
+ SAMTOOLS_CALMD before SAMTOOLS_PILEUP to prevent some freezing (sometimes observed)

  • 1.1

    77cb452e · 1.1 · 
    VERSION=1.1
+ new option -b, -5, -3 to clip input HTS reads
+ new option -d to set the minimum coverage depth to build each position of the output sequence
+ new option -l to set the minimum HTS read length
+ new option -m (minimum no. matches) to replace option -p (subject coverage proportion)
+ new option -x to use some of the available optimized presets of samtools consensus                       #
+ new option -v to display analysis reports
+ improved initial reference building
+ improved minimap2 parameters
+ improved consensus sequence computing

  • 1.0

    74f136aa · 1.0 · 
    VERSION=1.0
+ initial release