Eleni Christodoulou

icon company Duke NUS Medical School icon location Singapore icon location Computational Biologist, PhD, excited by gene regulatory networks and machine learning models that can explain complex biological phenomena.

Results 6 issues of Eleni Christodoulou

Re-open issue: invalid fastq files produced using --un #8

4 comment

Hello, I re-open this issue...I am mapping paired-end reads using bowtie2 and the --un option; therefore I retrieve two output fastq files, one for each paired-end read. I then use...

Splice Junction files retrieval

1 comment

Hello, I wanted to download Splice Junction files for the Primary Tumors of the TCGA-GBM project. I am runnin g R 4.0.0. I used the command `query The columns of...

Compilation error on AWS

Hello. I am trying to install hdf5r on AWS. The installed R version is 3.6.1. I have already successfully ran `sudo apt-get install libhdf5-dev` When I try to install the...

Getting active/inactive and major/minor promoters when no condition is specified

1 comment

Hello, I am trying to find active and inactive promoters and also major and minor promoters across a brain cancer dataset. I only need to retrieve the promoters for this...

DEXSeq hangs

Hello, I am using proActiv v1.0.0, because I run it on a server where R 4.0.0 is installed. I cannot install a newer version of R (I don't have the...

Is retrieval of connectivity at cell line level possible?

Dear PharmacoGx authors, I find PharmacoGx very useful for my research. I recently tried running it with my input signatures following the guide https://bioconductor.org/packages/release/bioc/vignettes/PharmacoGx/inst/doc/PharmacoGx.pdf I realized that the drug.perturbation object...