NEWS

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geno2proteo 0.0.6 (2022-06-13)

with the case that the input file contains some protein ID(s) which are not

in the gene annotation file and hence are not in the CDSaaFile used by the

function. Accordingly, added one row at the end of the test data file

of the function

• transId_pfamDomainStartEnd_chr16_Zdomains_22examples_proteinID.txt

for one protein ID which is not in any CDSaaFile in order to test the

added code

• 2. Made one change in the document Vignettes (in Section 1) to state that the

package is in the CRAN repository.

geno2proteo 0.0.5 (2022-02-10)

with the case that there is no overlap between the input genomic loci and the

protein coding genes, by returning a data frame with the genomic regions and

result columns filled with NAs, instead of a short message

• 2. Still in the function genomicLocsToProteinSequence(), it now outputs all the amino

acids coded by the DNA bases. In the previous version it did not output the amino acid coded

by the last DNA bases if it needs some more DNA base after the current DNA sequences, which

looks not that intuitive

• 3. Updated the introduction document (vignette) of the package. 4. Fixed an error caused by a new toolchain on Windows in which Perl installed on the system

does not automatically convert newlines on input to LF. The fix method had been

proposed by the maintainers of CRAN repository who encountered the issue at the first place

which was to replace all the "chomp;" in the two Perl scripts by "s/[\r\n

geno2proteo 0.0.4

with the case that there is no overlap between the input genomic loci and the

protein coding genes.

geno2proteo 0.0.3 (2018-01-24)

files in the folders that they should not be created, more modifications were done

in this version, namely putting the DNA sequence file uncompressed from the

gz file to the temporary folder

geno2proteo 0.0.2 (2018-01-23)

genomicLocsToWholeDNASequence, in order to keep them consistent with other

function names

• 2. Removed "utils" from the import list in DESCRIPTION file, because it is not used by the package. 3. Addressed the issue of creating and writting some files in the folders that they should not be created, as raised by the CRAN staff, by using the temporary folder obtained by tempdir().

geno2proteo 0.0.1 (2017-12-12)

September - November 2017: the package was tested and reviewed

January - May 2017: the package was written