API for mskilab/skitools
Various mskilab R utilties

Global functions
%!%	Man page
%~%	Man page
.e2class	Man page
.igv_host	Man page
.toggle_grfo	Man page
PPplots	Man page
af	Man page
af2	Man page
affine.map	Man page
alignment_metrics	Man page
all.paths	Man page
allele_multiplicity	Man page
alpha	Man page
anno.hop	Man page
anno.hops	Man page
arrstring	Man page
bisort	Man page
blend	Man page
border	Man page Source code
bplot	Man page
brew	Man page
brewer.master	Man page
bsub_cmd	Man page Source code
bubblemap	Man page
cameraplot	Man page
camerplot	Man page
capitalize	Man page
cc	Man page
ccf	Man page
charToDec	Man page
chr2num	Man page
chron	Man page
chunk	Man page Source code
circos	Man page
clock	Man page
clone_cluster	Man page
col.scale	Man page
col.slice	Man page
collapse.paths	Man page
complete	Man page
contig.support	Man page
cumseg	Man page
d3igraph	Man page
dcast2	Man page
dd	Man page
ddd	Man page
dedup	Man page Source code
dev.all.off	Man page Source code
dflm	Man page
dfstring	Man page
dirr	Man page
discordant.pairs	Man page
dmix	Man page
dodo.call	Man page
dplot	Man page
dtgr	Man page
dtt	Man page
du	Man page Source code
dunlist	Man page
edge2tip	Man page
elcycles	Man page
file.dir	Man page Source code
file.name	Man page Source code
file.ready	Man page
fill.blanks	Man page
fisher.combined	Man page Source code
fisher.pairwise	Man page
fisher.plot	Man page Source code
flatten	Source code
flow_slurm_status	Man page
footprint	Source code
fready	Man page Source code
fuckr	Man page Source code
func_code	Man page Source code
gatk_callvariants	Man page
gatk_haplotypecaller	Man page
gatk_oncotate	Man page
gc_content	Man page
get.field.widths	Source code
get.fwf.widths	Source code
get.pileup.gtrack	Man page
get.var.col	Man page
get.varcol	Man page
get_dryclean_pon_path	Man page
get_dryclean_pon_template	Man page
get_gene_ampdels_from_jabba	Man page
get_gene_copy_numbers	Man page
ggjs	Man page
gigs	Man page
gr.all	Man page
gr.breaks	Man page
gr.eval	Man page
gr.isclip	Man page
gr.isdisc	Man page
gr.mincov	Man page
gr.pad	Man page
gr.peaks	Man page Source code
gr.readfilter	Man page
gr.refactor	Man page
gr.round	Man page
gr.tostring	Man page
gr2gatk	Man page Source code
gr2grl	Man page
gr2json	Man page
grl.filter	Man page
grl.span	Man page
grl.split	Man page
grok_bcf	Man page
grok_vcf	Man page
gsea_leading_edge	Man page
gstring	Man page Source code
headf	Man page
hets	Man page
html_link	Man page
html_tag	Man page
igv	Man page
igv.loci	Man page
img.html	Man page
img_link	Man page
import.ucsc	Man page
ind2sub	Man page
install.packages.bioc	Man page
install.packages.github	Man page
is.dup	Man page
jab2json	Man page
jabba.gwalk	Man page
jgraph	Man page
jhom	Man page
junction.support	Man page
karyoSim	Man page
karyotrack	Man page
kill.zombies	Man page
label.runs	Man page
ldim	Man page Source code
levapply	Man page
lighten	Man page
line.counts	Source code
list.expr	Man page Source code
loud	Man page
lsf_query	Man page
lsos	Man page Source code
maf2vcf	Man page
maf_classify	Man page
maf_coding	Man page
maf_disp	Man page
maf_exonic	Man page
maf_genic	Man page
maf_indel	Man page
maf_nonsyn	Man page
maf_nonyn	Man page
maf_ns	Man page
maf_sub	Man page
maf_syn	Man page
maf_to_simple	Man page
maf_truncating	Man page
maflite	Man page
match.bs	Man page
match.seq	Man page
memu	Man page
mmatch	Man page
modix	Man page
morder	Man page
more	Man page
mski_alpha	Man page
mtable	Man page
muffle	Man page
multicoco	Man page
munlist	Man page
mut_genecluster	Man page
mutclusters	Man page
mutpairsd	Man page
mutrate_window	Man page
nnnusvr	Man page
nona	Man page Source code
nz	Man page
oncoprint	Man page
oncotable	Man page
oneoffs	Man page
padding	Man page
parsesnpeff	Man page
phist	Man page
pindel	Man page
plop	Man page
plot.blank	Man page
plot_multiplicity	Man page
pmGSEA	Man page
pp2gb	Man page
pp_plot	Man page
ppdf	Man page
ppgrid	Man page
ppng	Man page
preprocess_cov_for_dryclean	Man page
prettyMem	Source code
print_eq	Man page
process_gencode	Man page
pscatter	Man page
qhost	Man page
qq_pval	Man page Source code
qq_repel	Man page Source code
qstat	Man page
query_lsf_out	Man page Source code
queues	Man page
quickSig	Man page
qviz	Man page
ra.overlaps	Man page
ra.setdiff	Man page
ra.union	Man page
ra_breaks	Man page Source code
ra_tier	Man page
read.delim.cat	Man page Source code
readRDA	Man page
read_hg	Man page
read_pon_dict	Man page
reads.to.walks	Man page
rebin	Man page
rel2abs	Man page
relib	Man page
reorder_maf	Man page
rmix	Man page
row.slice	Man page
rpipe	Man page
rr	Man page
rrbind	Man page
rrbind2	Man page
sc.context	Man page
score.walks	Man page Source code
seconds	Man page
seqinfo2gr	Man page
set.comp	Man page
setxor	Man page
sgrep	Man page
sgrepl	Man page
skitools	Man page
skitools-package	Man page
slurm_dt	Man page
sortable	Man page
sparse_subset	Man page
splot	Man page
spmelt	Man page
ssegment	Man page
sstat	Man page
standardize_segs	Man page
stavePDF	Man page
staveRDS	Man page
strsplit.fwf	Man page Source code
strsplit2	Man page
sub2ind	Man page
system.call	Man page
tabstring	Man page
tailf	Man page
timestamp	Man page
toggle_grfo	Man page
ucount	Man page
vaggregate	Man page
variants	Man page
vgr2ra	Source code
vplot	Man page
wfplot	Man page Source code
which.char	Man page
wij	Man page
wijj	Man page
write.htab	Man page
write.tab	Man page Source code
write_ggjs	Man page