Files in packFinder
de novo Annotation of Pack-TYPE Transposable Elements
README.md
packFinder documentation built on Nov. 8, 2020, 5:24 p.m.
NAMESPACE
DESCRIPTION
build/vignette.rds
data/arabidopsisThalianaRefseq.rda
data/packMatches.rda
R/getPacksFromCsv.R
R/packBlast.R
R/getPacksFromFasta.R
R/blastAnalysis.R
R/blastAnnotate.R
R/getPacksFromGRanges.R
R/makeBlastDb.R
R/packAlign.R
R/readUc.R
R/identifyPotentialPackElements.R
R/packsToCsv.R
R/identifyTirMatches.R
R/packsToGRanges.R
R/collapseSeqs.R
R/tirClust.R
R/arabidopsisThalianaRefseq.R
R/filterWildcards.R
R/packFinder.R
R/packClust.R
R/getTsds.R
R/packsToFasta.R
R/getPackSeqs.R
R/readBlast.R
R/packMatches.R
R/packSearch.R
vignettes/tirSeq.jpg
vignettes/packFinder.Rmd
man/arabidopsisThalianaRefseq.Rd
man/packSearch.Rd
man/getPacksFromCsv.Rd
man/collapseSeqs.Rd
man/blastAnalysis.Rd
man/packBlast.Rd
man/packClust.Rd
man/packsToCsv.Rd
man/packFinder.Rd
man/tirClust.Rd
man/filterWildcards.Rd
man/getTsds.Rd
man/getPacksFromFasta.Rd
man/identifyTirMatches.Rd
man/blastAnnotate.Rd
man/readUc.Rd
man/packAlign.Rd
man/packMatches.Rd
man/readBlast.Rd
man/getPackSeqs.Rd
man/getPacksFromGRanges.Rd
man/identifyPotentialPackElements.Rd
man/makeBlastDb.Rd
man/packsToGRanges.Rd
man/packsToFasta.Rd
tests/testthat.R
tests/testthat/test_packSearch.R
tests/testthat/test_tirClust.R
tests/testthat/test_collapsed.R
tests/testthat/test_data.R
tests/testthat/test_convert.R
tests/testthat/test_read.R
tests/testthat/data-raw/alignOutput.uc
tests/testthat/data-raw/clustOutput.blast6out
tests/testthat/data-raw/clustOutput.uc
tests/testthat/data-r/consensusSeqs.rda
inst/packFinder_hex.png
inst/NEWS
inst/doc/packFinder.html
inst/doc/packFinder.Rmd
inst/doc/packFinder.R
inst/extdata/packMatches.fasta
inst/extdata/packMatches.uc
inst/extdata/packMatches.csv
inst/extdata/packMatches.blast6out
inst/scripts/fasta.R
inst/scripts/uc.R
inst/scripts/csv.R
inst/scripts/blast6out.R
