Include Phantompeakqualtools step

Add in Phantompeakqualtools

Use phantompeakqualtools to get NSC RSC est_frag_len

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Here are the commands to install this, it doesn't seem to work in R/3.4.2 for me but 3.3 works.

module add R/3.3.2-gccmkl git boost/gcc/1.61.1 export CPATH=/cm/shared/apps/boost/gcc/1.61.0/include:$CPATH

git clone https://github.com/kundajelab/phantompeakqualtools.git cd phantompeakquotatools

R R CMD INSTALL spp_1.14.tar.gz

R

install.packages('snowfall')

Finally you can run it: Rscript run_spp.R

Note: I a lot of R packages installed in my home directory due to installation testing, you may or may not have them, just run:

install.packages('name') to install them.

Long Lu

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mentioned in merge request !11 (merged)

closed via commit 17b7de97

closed via merge request !11 (merged)