CompAIRR 1.13.0

Add option --no-matrix to avoid storage or output of the matrix. May be used with the -p option to save memory and time if there are many repertoires.

CompAIRR 1.12.0

CompAIRR 1.12.0 adds the new -e / --ignore-empty option to ignore empty sequences. If any sequences are ignored it will also show the number of ignored sequences.

CompAIRR 1.11.0: Add distance option, fix keep-columns option name

Add --distance option to write sequence distance to pairs file. Change --keep_columns option to --keep-columns.

CompAIRR 1.10.0

CompAIRR 1.10.0 introduces the new options --keep_columns (or -k) and --cdr3.

The --keep_columns option will copy specified columns from both input files into the pairs file when using the --pairs (or -p) option. Multiple column names separated by commas may be specified.

The --cdr3 option will use the cdr3 or cdr3_aa column instead of the default junction or junction_aa column.

Default repertoire ID's (1 or 2, respectively) will be used if the column is missing.

CompAIRR 1.9.0

CompAIRR 1.9.0 increases the resolution of timings to nanoseconds.

CompAIRR 1.8.0

Detect sequence duplicates. Add command to deduplicate datasets. Update documentation.

CompAIRR 1.7.0

Added option to compute Morisita-Horn or Jaccard index. Allow any distance d, albeit slow when d>2.

CompAIRR 1.6.1

Fix segfault with d=3 and very short sequences.

CompAIRR 1.6.0

Add support for up to 3 substitutions (d=3) using the -d 3 option. It will be very slow, but perhaps usable for small datasets.

CompAIRR 1.5.1

This version fixes another segmentation fault in clustering.