API for phraber/lassie
Tools to select sites and sequences that represent variation in a longitudinally sampled protein alignment

Global functions
CH505 Man page
aa.col Man page
add.clone Source code
annotate.region Source code
compute.hd.matrix Source code
compute.peak.tf.loss Source code
compute.tf.area Source code
compute.tf.loss Source code
compute.variant.frequencies Source code
compute.variant.frequency Source code
compute.whenup Source code
concatamerize Source code
create.refseq.lut Source code
create.refseq.lut.from.file Source code
create.tf.loss.matrix Source code
create.timepoint.parser Man page Source code
create_sequence_subset Source code
dotify.matrix Source code
env.features Man page
excise.refseq Source code
exclude.vloop.sites Source code
export.fasta.swarmset Man page Source code
export.swarmset Man page Source code
get.refseq.row Source code
hamming.dist Source code
init.clone.list Source code
is.protein Man page Source code
lassie Man page
lassie-package Man page
longest.deletion.per.sequence Source code
longest.indel.in.sequence Source code
longest.insertion.in.sequence Source code
longest.insertion.per.sequence Source code
make.logoplot Source code
make.swarm.logos Source code
make.timepoint.logos Man page Source code
onAttach Source code
parse.timepoints Source code
plot.peak.loss.cdf Source code
plot.swarmset Man page Source code
plot.swarmtools Man page Source code
plot.tf.loss Source code
plot.tf.loss.matrix Source code
plot.tf.loss.vector Source code
plot.variant.frequency Source code
pngs2o Man page Source code
prep.aln Man page Source code
print.swarmset Man page Source code
print.swarmtools Man page Source code
read.alignment.file Man page Source code
report.variant.frequencies Man page Source code
resample.swarmset Man page Source code
rewrite.custom.colors Source code
select.clones Source code
select.sites Source code
set.alignment Man page Source code
set.alignment.file Man page Source code
set.excluded.sites Source code
set.included.sites Source code
set.refseq Source code
set.tf Man page Source code
set.tf.loss.cutoff Man page Source code
set.tp.parser Man page Source code
summary.swarmset Man page Source code
summary.swarmtools Man page Source code
swarmset Man page Source code
swarmtools Man page Source code
tabulate.swarmset Man page Source code
tabulate.variants Source code
update.variant.counts Source code
vgrepl Man page Source code
write.fasta.file Source code
write.lut.file Source code
phraber/lassie documentation built on Oct. 29, 2018, 10:28 p.m.