Files in manzomonza/auto-ngs-annotation

Editing, Parsing And Annotation of ThermoFisher IonReporter and Genexus Precision NGS Results

R/BimiAnnotation.R R/KarolinskaMTBP.R R/PathoWin_Annotation.R R/PathowinAnnotation_WatchdogTables.R R/PrecisionRNA_fusionParser.R R/ReadRenameSelect.R R/WatchdogTables_Pipelines.R R/activity_list_string.R R/addMissingCols.R R/alleleColumnCheck.R R/aminoacidConversion.R R/annot_CNV.R R/annot_exon.R R/cancerHotspots_counter.R R/checkTSGpos.R R/classification_De_Fr.R R/clinvar_variant_info_check.R R/cnvParse.R R/count_cosmic_tissue.R R/count_variants_per_panel.R R/cp_mv_GNXS_info.R R/create_output_files.R R/double_gene_name.R R/entryTable_metadata.R R/extract_snv_AA_position.R R/frameshift_clinvarfix.R R/frequency_mult_100_q.R R/horak_scoring.R R/makeOutputTablesPrecision.R R/make_SNV_CNV_table.R R/order_ClinicalSignificance.R R/percentParse.R R/prepFilepaths.R R/readIn.R R/renameCols.R R/renameGNXSoutput.R R/saveReport_xlsx.R R/shortenFileName.R R/snvParse.R R/spliceSiteAnnot.R README.md man/ClassficationDe.Rd man/ClassficationFr.Rd man/FusionOutput.Rd man/activityList_format.Rd man/addMissingCols.Rd man/allelecolumnCheck.Rd man/amino_acid_conversion_one_to_three.Rd man/amino_acid_conversion_three_to_one.Rd man/annotateWatchdogTables.Rd man/bimiMatchUp.Rd man/checkTSG.Rd man/clinvarCheck.Rd man/clinvarSingleRow.Rd man/clinvarTableOutput.Rd man/cnvAnnot.Rd man/cnvParse.Rd man/complex_one_to_three.Rd man/cosmic_counter_per_table_element.Rd man/cosmic_counter_wrapper.Rd man/cosmic_sql_search.Rd man/count_variants_per_panel.Rd man/counter_cosmic_variant_tissue.Rd man/cp_mv_gnxs.Rd man/create_output_files.Rd man/diagnose_D_F_columns_snv.Rd man/exonAnnot.Rd man/extract_snv_position.Rd man/fsClinvarfix.Rd man/fusionInfoParser.Rd man/fusionParser.Rd man/gene_symbol_sub.Rd man/gene_symbol_sub_table.Rd man/infoName.Rd man/info_cancerHotspots.Rd man/make_output_tables.Rd man/make_output_tables_precision.Rd man/mtbpFormat.Rd man/mult100.Rd man/oneORthree_code.Rd man/one_three_aa_precision.Rd man/orderSignificance.Rd man/percentParse.Rd man/precisionPipeline_TableOutput.Rd man/prep_chr.Rd man/prep_filepaths.Rd man/readIn.Rd man/read_rename_select.Rd man/read_rename_select_precision_snv.Rd man/renameCol.Rd man/row_activityList_format_cnv.Rd man/row_activityList_format_snv.Rd man/saveReport_xlsx.Rd man/shortenFilename.Rd man/snvParse.Rd man/splicesite_Annot.Rd man/splicesite_rowwise.Rd man/stdPipeline_TableOutput.Rd man/std_metadataCollector.Rd man/tsgParseTable.Rd man/wrapper_row_cancerHotspots.Rd man/wrapper_table_cancerHotspots.Rd