API for decusInLabore/biologicSeqTools
Seq Analysis Helper Functions
| Global functions | |
|---|---|
| DGEanalysis | Man page |
| DotPlotSB | Man page |
| LRTanalysis | Man page |
| add.category.to.lab.reference.table.hs | Man page Source code |
| add2labCatSelectionDBtable | Man page |
| add2vec | Man page |
| addCoVar | Man page |
| addDGEcomparisons2DesignFile | Man page Source code |
| addGeneAnnotation | Man page |
| addProject2ProjectTable | Man page Source code |
| addTPMorFPKMtable | Man page |
| assignDbUsersAndPrivileges | Man page Source code |
| bioLOGIC-class | Man page |
| completeDesignBasedOnSampleID | Man page Source code |
| create.GSEA.table | Man page Source code |
| create.gmt.file.from.ref.data.table | Man page Source code |
| create.gsea.rnk.files | Man page Source code |
| create.rnaseqc.script | Man page Source code |
| create.timecourse.cat.lines | Man page Source code |
| create.tpm.and.fpkm.tables | Man page Source code |
| create.website.parameters | Man page Source code |
| createAlignmentShellScript | Man page |
| createAnalysisFolders | Man page |
| createAndFormatExcelOutputFiles | Man page Source code |
| createConcatenateFASTQfilesShellScript | Man page Source code |
| createDdsObject | Man page |
| createDesignFileCrickASFsamples | Man page Source code |
| createExcelWorkbook | Man page Source code |
| createNewProject | Man page Source code |
| createPCAloadingPlots | Man page |
| createRMDscript | Man page |
| createRNAseqQCscript | Man page |
| createSRAdownloadScript | Man page Source code |
| createSRRdownloadScript | Man page Source code |
| createSampleDendrogram | Man page |
| createSettingsFile | Man page Source code |
| createSettingsJSON | Man page Source code |
| createSeuratSettingsFile | Man page Source code |
| createTrimGaloreShellScript | Man page |
| createbulkRNASeqAnalysisBashScripts | Man page Source code |
| datatable.to.website.ptm | Man page |
| dbcat2gmt | Man page Source code |
| do.differential.expression.analyis | Man page Source code |
| doDGEanalysis | Man page |
| doLRTanalysis | Man page |
| doLinearFittings | Man page |
| doPCA | Man page |
| doQuery | Man page Source code |
| excel | Man page Source code |
| hpcClusterSubmisison | Man page Source code |
| import.db.table.from.db | Man page Source code |
| inferDBcategories | Man page Source code |
| killDbConnections | Man page |
| list.db.table.col.names | Man page Source code |
| list.db.tables.in.db | Man page Source code |
| listExistingProjects | Man page Source code |
| make.hm | Man page Source code |
| msigdb.gmt2refDB | Man page Source code |
| organizeFastqFiles | Man page Source code |
| prepareRSEMcountMatrix | Man page |
| profileCluster | Man page |
| readAndPrepareCountMatrix | Man page Source code |
| retrieve.gene.category.from.db | Man page Source code |
| selectHeatmapGenes | Man page Source code |
| setAnalysisPaths | Man page |
| setCrickGenomeAndGeneNameTable | Man page |
| setDataBaseParameters | Man page |
| setMountingPoint | Man page |
| upload.datatable.to.database | Man page Source code |
| upload.pca.table.to.db | Man page Source code |
| uploadDbTableInfile | Man page Source code |
