BRB-seqTools v.1.7.0

• Changing picard-2.9.0 library for handling fastsq/bam files to the (much lighter) htsjdk-2.24.1 library. Overall release should be much lighter as well
• Changing the output of the Demultiplex pipeline so that the demultiplexed fastq files now match the UMI-tools format i.e. READNAME_BARCODE_UMI in each demultiplexed fastq file. The BARCODE being corrected according to the whitelist provided with -c option.
• Correcting a bug with certain fastq file only having read names without index information (#11)

BRB-seqTools v.1.6.1

• Corrected a bug caused by a specific read-name format with certain sequencers

BRB-seqTools v.1.6.0

• Correcting minor display errors and enhancing some outputs
• Adding a new step for extracting read count matrix from STARsolo
• Handling new STARsolo behaviour, keeping the CB tag, but setting it to '-' if barcode is not found.

BRB-seqTools v.1.4.1

• Enhancing GTF Handling
• Bugs in GTF Handling when the "gene" annotation was not present

BRB-seqTools v.1.3

• Annotate BAM
• Correcting GTF bugs

BRB-seqTools v.1.2

• Handling of UMI sequencing errors.
• UMI are now counted by position, and not by gene.
• Handling of GTF files without "gene" annotation in the 3rd column

BRB-seqTools v.1.1

• Novel "AnnotateBAM" tool + "-s" option
• Bug correction that was creating a 1bp difference as compared to htseq-count, now results are perfectly identical (with "union" option)

BRB-seqTools v.1.0

Debug autoFindBarcode