Version 0.1.5: June 10, 2020
Backwards Incompatible Changes:
- Changed default expected data format from the Change-O data format to the AIRR Rearrangement standard. For example, where functions used the column name V_CALL (Change-O) as the default to identify the field that stored the V gene calls, they now use v_call (AIRR). Scripts that relied on default values (previously, toHap_col=“V_CALL”), will now fail if calls to the functions are not updated to reflect the correct value for the data. If data are in the Change-O format, the current default value toHap_col=“v_call” will fail to identify the column with the V gene calls as the column v_call doesn’t exist. In this case, toHap_col=“V_CALL” needs to be specified in the function call.
- For consistency with the style of the new data format default, field names in all other user exposed data structures have been updated to use the same font case style.
General:
- Updated dependencies to R >= 3.5.0, dplyr >= 1.0.0, ggplot2 >= 3.2.0, alakazam >= 1.0.0, tigger >= 1.0.0, and tidyr >=1.0.0.
Version 0.1.4: January 28, 2020
- Fixed bug within the
hapHeatmap visualization.
Version 0.1.3.999: November 18, 2019
- Adapted
deletionsByVpooled to infer single chromosome deletion from light chain repertoire.
- Added html5 interactive output for
deletionHeatmap visualization.
Version 0.1.3: September 8, 2019
- Optimized
hapHeatmap visualization, r base graph.
Version 0.1.2: July 25, 2019
- Improved visualization of short read sequences annotation.
Version 0.1.1: May 8, 2019
- Improved
createFullHaplotype run-time
- Fixed a bug wherein
createFullHaplotype miss-handled novel allele labels
Version 0.1.0: March 4, 2019