Author Archives: fischuu

In order to maintain a better structure of the package, I ‘outsourced’ today all the I/O functions into a separate R-package called GenomicTools.fileHandler. That way I hope to get a better structure into my packages, as some I/O functions are … Continue reading →

The importGTF() function received today some import option checks to make it easier to use/trace mistakes.

The QTL function accepts now also matrices and vectors as input fot the genotypes.

A new function to import the output of featureCOunts to R has been added.

The importGTF() function has now an option to define numeric values during the import. This makes it easier to import expression data in gtf format. By default FPKM and TPM are imported as numeric values, but also other feature names … Continue reading →

The function prereadGTF() was added to the package. The function reads in by default the first 1000 rows of a gtf and summarizes the content in a way that the inforamtion is needed to import the GTF properly. For that … Continue reading →

When the last feature in V9 of importGTF() was requested, the ending semicolon was not removed. This issue is resolved and the semicolon is removed now during the import.

The importGTF() function can now also import several gtf and merge them into one output file. Further, the function offers now verbose feedback (if requested with the verbose=TRUE option). Another change is the skip option, previously the default was to … Continue reading →