Alistair Chalk

icon indicating a website link www.wehi.edu.au icon indicating an email [email protected]

icon company Walter and Eliza Hall Institute of Medical Research icon location Melbourne, Australia icon location Scientist, avid reader, coffee addict and data professional. Sceptic, contrarian, meditator. Often found dancing.

Results 8 comments of Alistair Chalk

Multiple geom_text_repel give overlapping labels

+1 for this functionality.

Salmon Quantmerge input files

+1 For this functionality on gene level data

duplicate rownames not allowed => change error notification?

Suggest using fread or similar for reading input in R. Works nicely and much more verbose in error messaging.

Support for BCLs

A script or tutorial would be very useful!

Module request: CellRanger COUNT

+1 for this. At least for the metrics_summary.csv part for now.

Enhancement: Use odf files as input

It is a Broad/GenePattern format: http://www.broadinstitute.org/cancer/software/genepattern/gp_guides/file-formats/sections/odf http://www.broadinstitute.org/cancer/software/genepattern/tutorial/linkedFiles/all_aml_train.preprocessed0.odf

Enhancement: Use odf files as input

Actually in general being able to take the .odf, .gct and .cls/.clm files all together and working with those would be really cool, as these contain: .odf: de data .gct:...

enhancement: include expression values

yeah thats what I mean