Files in VladaMilch/pdProbeRemap
What the package does (short line)
DESCRIPTION
NAMESPACE
R/00_data.R
R/01_FROM_schema.R
R/02_FROM_pdInfoBuilder_utils.R
R/03_FROM_pdInfoBuilder_main_parcing_functions.R
R/04_FROM_pdInfoBuilder_V2NgsExpression.R
R/05_FROM_pdBuilder_V2ExonTranscription.R
R/05_modified_pdInfoBuilder_parsing_functions.R
R/0_DataClasses.R
R/10_0_makeOriginalPackageObject.R
R/10_1_annotation2fasta.R
R/10_2_star_command.R
R/1_SAM_read.R
R/2_processAlignments.R
R/3_annotate.T.alignment.R
R/4_filter.T.alignment.R
R/5_annotate.G.alignment.R
R/6_1_cigar2length.R
R/6_2_cigar2_right.R
R/6_3_cigar2_left.R
R/6_4_annotate.non25M.genomic.transcript_wise.R
R/6_getExonExonBorder.R
R/7_alignments2probesetsRaw.R
R/8_1_addControlProbes.R
R/8_cleanProbeSets.R
R/90_make_objects_for_reannotation.R
R/91_new.R
R/92_alignments2parsedData.R
R/93_make_package_from_parsedData.R
R/94_makeNewAnnotationPackage.R
R/utils.R
data/Alignments_class_example.rda
data/Annotation_example.rda
data/seed_example.rda
inst/doc/pdProbeRemap.R
inst/doc/pdProbeRemap.Rmd
inst/doc/pdProbeRemap.pdf
inst/extdata/example_drosophila.Aligned.out.sam
inst/extdata/example_drosophila.Aligned.toTranscriptome.out.bam
inst/extdata/example_drosophila.Aligned.toTranscriptome.out.sam
inst/extdata/example_drosophila.fasta
man/Alignments.Rd
man/Alignments_class_example.Rd
man/Annotation_example.Rd
man/alignments2parsedData.Rd
man/alignments2probesetsRaw.Rd
man/annotate.G.alignment.Rd
man/annotate.T.alignment.Rd
man/annotate.non25M.genomic.transcrits_wise.Rd
man/annotation2fasta.Rd
man/build_new_ParsedDataOld_object_PGF.Rd
man/cigar2_left.Rd
man/cigar2_right.Rd
man/cigar2length.Rd
man/cleanProbeSets.Rd
man/filter.T.alignment.Rd
man/getExonExonBorder.Rd
man/makeNewAnnotationPackage.Rd
man/makeOriginalPackageObject.Rd
man/make_objects_for_reannotation.Rd
man/processAlignments.Rd
man/read.sam.Rd
man/seed_example.Rd
man/star.command.make.Rd
tests/testthat.R
tests/testthat/test_10_0.R
tests/testthat/test_10_1.R
tests/testthat/test_90.R
tests/testthat/test_91.R
tests/testthat/test_92.R
tests/testthat/test_93.R
vignettes/pdProbeRemap.Rmd
vignettes/tmpProbesTableDir/ProbesPGF.csv
