NEWS
BSgenomeForge 1.12.0
BUG FIXES
- Fix issue in internal helper drop_rows_with_NA_accns()
- Remove outdated links from
inst/pkgtemplates/BSgenome_datapkg/man/package.Rd and
inst/pkgtemplates/MaskedBSgenome_datapkg/man/package.Rd
BSgenomeForge 1.10.0
SIGNIFICANT USER-VISIBLE CHANGES
BUG FIXES
- Make sure internal helper create_2bit_BSgenome_datapkg() can
move the 2bit file across partitions without getting hit by
an "Invalid cross-device link" error.
BSgenomeForge 1.8.0
- No significant changes in this version.
BSgenomeForge 1.6.0
- No significant changes in this version.
BSgenomeForge 1.4.0
NEW FEATURES
- Add forgeBSgenomeDataPkgFromTwobitFile()
- fastaTo2bit() improvement: the function now automatically replaces IUPAC
ambiguity letters not supported by the 2bit format with N's and issue
a warning.
SIGNIFICANT USER-VISIBLE CHANGES
- The vignette documenting the seed-based forging process that used to
be in the BSgenome software package is now in the BSgenomeForge package.
This vignette used to be called the "BSgenomeForge vignette" but it has
now be renamed the "Advanced BSgenomeForge usage" vignette.
- All the tools related to the seed-based forging process and used by
the new "Advanced BSgenomeForge usage" vignette are now in the
BSgenomeForge package.
BSgenomeForge 1.2.0
NEW FEATURES
- Two improvements to forgeBSgenomeDataPkgFromNCBI() when the NCBI
assembly is registered in the GenomeInfoDb package:
- The assembly name can be specified via the 'assembly_accession'
argument instead of its GenBank or RefSeq accession.
- The 'organism' argument no longer needs to be specified.
BSgenomeForge 1.0.0
- First version of the package that is ready for general use.