NEWS
scifer 1.12.1
- fix minor bug that crashed
quality_report when some sequences had problematic quality and had NA or Inf values
- this affects
summarise_quality and summarise_abi_file
scifer 1.9.1
- fix igblast cdr3 bug with the contribution of Sebastian Ols (@sebbeols)
- this affects igblast.R function, but mainly the igblast wrapper igblastwrap.py
scifer 1.8.1
- Update citation, scifer is now published in ImmunoInformatics (DOI: 10.1016/j.immuno.2024.100046).
scifer 1.8.0
NEW FEATURES
- New igblast wrapper function to run igblast on fasta sequences
- igblast function returns the output from a local igblast run with any custom database
- New function requires additional steps for ARM processors, please read the README
scifer 1.7.1 (2024-04-24)
BUG FIXES
- Fix compensation bug due to different compensation matrix positions in different
.fcs file versions
- update minor nomenclature to AIRR-standards, column
file_ID to sequence_id
- Fix error of
HC_individualized_report.Rmd file not being found
NEW FEATURES
- Update quality thresholds based on a large B cell receptor test dataset
scifer 0.99.4 (2022-10-31)
- Version bump to bioconductor, updated description
scifer 0.99.3 (2022-09-20)
BUG FIXES
- Fix NOTE when building on windows computer
scifer 0.99.2 (2022-09-08)
NEW FEATURES
- Update vignette according to Bioconductor
- Added unit tests for functions
SIGNIFICANT USER-VISIBLE CHANGES
- Split function fcs_processing() into two functions:
- fcs_processing()
- fcs_plot()
BUG FIXES
- Minor changes to avoid possible bugs
scifer 0.99.1 (2022-08-26)
- Version bump to fix Bioconductor building error
scifer 0.99.0 (2022-08-10)
- Adapting package for Bioconductor submission
scifer 0.98.0 (2022-08-09)
- Major changes in functions
- nomenclature and all documentation were added following R style guidelines
- Processing flow cytometry data and adding to the quality_report() function
scifer 0.1.0 (2022-04-15)
scifer 0.0.1 (2020-08-10)
- Primordial package created with simple functions and bugs