BlobTools v1.1.1

Features

• Added possibility to circumvent --plotgroups limit of 8 by specifying colours.txt manually.
• Added Dockerfile

BlobTools v1.1

Release v1.1

• Fixed bugs
• Added dependencies: pysam, tqdm, pyyaml
• Removed dependency: samtools
• Added faster coverage estimation
  • BAM files must be sorted/indexed
• Please report issues if this breaks existing pipelines

BlobTools v1.0.1

• Removed redundant example files
• Fix to view to work with legacy BlobDBs from older versions of BlobTools which did not have read-coverage

BlobTools v1.0

• major release

Fix for bamfilter

• added unmapped flag when providing no --exclude/--include to get InIn/InUn and UnUn reads
• removed progress flag as it didn't impact performance

blobtools v0.9.19.6

• Fixed problems with older versions of samtools which caused crashes
  due to missing "secondary reads" count in output.
• Fixed false warnings when parsing samtools flagstat output (has no
  effect on final output)

blobtools v0.9.19.5

• bugfixes

blobtools v0.9.19.4

New feature

bamfilter : reads from a BAM file get filtered into different files:
- *InIn* : both reads of a pair are mapped to a contig in "include"
- *InUn*: One read of pair maps to contig in "include", the other is unmapped
- *UnUn*: both reads of a pair are unmapped
if list of contigs to "include"/"exclude" is supplied, additional files get created:
- *ExEx*: both reads of a pair are mapped to a contig in "exclude"
- *ExIn* : One read of pair maps to contig in "include", the other maps to contig in "exclude"
- *ExUn*: One read of pair maps to contig in "exclude", the other is unmapped

blobtools v0.9.19.3

• hotfixes

blobtools v0.9.19.2

• fixed behaviour so that no readcovplot is written when plotObj.cov_libs_total_reads_dict[cov_lib] == 0