Files in SGSeq
Splice event prediction and quantification from RNA-seq data

NEWS
DESCRIPTION
NAMESPACE
inst/CITATION
inst/scripts/createExampleData.R inst/unitTests/test_convertToSGFeatures.R inst/unitTests/test_getSGVariantCounts.R inst/unitTests/test_predictTxFeatures.R inst/unitTests/test_getSGFeatureCounts.R inst/unitTests/test_analyzeFeatures.R inst/unitTests/test_convertToTxFeatures.R inst/unitTests/test_analyzeVariants.R inst/unitTests/test_getBamInfo.R inst/unitTests/test_annotate.R inst/unitTests/test_mergeTxFeatures.R inst/unitTests/test_predictVariantEffects.R inst/unitTests/test_classes.R inst/unitTests/test_findSGVariants.R
inst/doc/SGSeq.html
inst/doc/SGSeq.R inst/doc/SGSeq.Rmd
inst/extdata/bams/N1.bam.bai
inst/extdata/bams/N4.bam.bai
inst/extdata/bams/T3.bam.bai
inst/extdata/bams/T3.bam
inst/extdata/bams/T4.bam
inst/extdata/bams/T1.bam.bai
inst/extdata/bams/N1.bam
inst/extdata/bams/T2.bam
inst/extdata/bams/T1.bam
inst/extdata/bams/N4.bam
inst/extdata/bams/N2.bam
inst/extdata/bams/N3.bam
inst/extdata/bams/T2.bam.bai
inst/extdata/bams/T4.bam.bai
inst/extdata/bams/N3.bam.bai
inst/extdata/bams/N2.bam.bai
vignettes/classes.pdf
vignettes/classes.png
vignettes/SGSeq.bib
vignettes/SGSeq.Rmd R/misc.R R/data.R R/slots-generics.R R/sequences.R R/plots.R R/overlaps.R R/features-prediction.R R/convert.R R/counts.R R/slots-methods.R R/features-merge.R R/graphs.R R/features-filter.R R/classes.R R/main.R R/annotation.R man/sgfc_pred.Rd man/importTranscripts.Rd man/getSGFeatureCounts.Rd man/annotateSGVariants.Rd man/SGFeatureCounts.Rd man/predictTxFeatures.Rd man/predictTxFeaturesPerStrand.Rd man/predictJunctions.Rd man/predictVariantEffects.Rd man/annotate.Rd man/updateObject.Rd man/gr.Rd man/plotCoverage.Rd man/predictCandidatesTerminal.Rd man/sgv_ann.Rd man/junctionCompatible.Rd man/plotSpliceGraph.Rd man/SGVariants.Rd man/splicesiteOverlap.Rd man/getSGFeatureCountsPerSample.Rd man/sgvc_pred.Rd man/processTerminalExons.Rd man/findOverlapsRanges.Rd man/plotVariants.Rd man/mergeTxFeatures.Rd man/removeExonsIsolated.Rd man/convertToSGFeatures.Rd man/findSGVariants.Rd man/exonCompatible.Rd man/txf_pred.Rd man/sgvc_ann.Rd man/sgvc_ann_from_bam.Rd man/sgf_ann.Rd man/exportFeatures.Rd man/predictTxFeaturesPerSample.Rd man/predictCandidatesInternal.Rd man/SGFeatures.Rd man/tx.Rd man/assays.Rd man/txf_ann.Rd man/SGSegments.Rd man/analyzeVariants.Rd man/si.Rd man/predictSpliced.Rd man/SGVariantCounts.Rd man/filterFeatures.Rd man/analyzeFeatures.Rd man/getSGVariantCounts.Rd man/getBamInfo.Rd man/plotFeatures.Rd man/sgv_pred.Rd man/TxFeatures.Rd man/makeSGFeatureCounts.Rd man/slots.Rd man/makeVariantNames.Rd man/convertToTxFeatures.Rd man/sgf_pred.Rd man/sgfc_ann.Rd man/sgvc_pred_from_bam.Rd man/predictExonsTerminal.Rd man/predictExonsInternal.Rd
build/vignette.rds
tests/runTests.R
data/sgv_ann.rda
data/sgvc_ann.rda
data/txf_ann.rda
data/sgv_pred.rda
data/sgvc_pred.rda
data/sgf_pred.rda
data/gr.rda
data/sgf_ann.rda
data/sgfc_ann.rda
data/sgfc_pred.rda
data/txf_pred.rda
data/tx.rda
data/sgvc_ann_from_bam.rda
data/sgvc_pred_from_bam.rda
data/si.rda
SGSeq documentation built on Dec. 9, 2018, 6 p.m.