API for scPipe
pipeline for single cell RNA-seq data analysis

Global functions
.guess_attr Source code
.qq_outliers_robust Man page Source code
QC_metrics Man page
QC_metrics,SingleCellExperiment-method Man page
QC_metrics.sce Man page Source code
QC_metrics<- Man page
QC_metrics<-,SingleCellExperiment-method Man page
UMI_dup_info Man page
UMI_dup_info,SingleCellExperiment-method Man page
UMI_dup_info.sce Man page Source code
UMI_dup_info<- Man page
UMI_dup_info<-,SingleCellExperiment-method Man page
UMI_duplication Man page
anno_import Man page Source code
anno_to_saf Man page Source code
calculate_QC_metrics Man page Source code
cell_barcode_matching Man page
convert_geneid Man page Source code
create_processed_report Man page Source code
create_report Man page Source code
create_sce_by_dir Man page Source code
demultiplex_info Man page
demultiplex_info,SingleCellExperiment-method Man page
demultiplex_info.sce Man page Source code
demultiplex_info<- Man page
demultiplex_info<-,SingleCellExperiment-method Man page
detect_outlier Man page Source code
gene_id_type Man page
gene_id_type,SingleCellExperiment-method Man page
gene_id_type.sce Man page Source code
gene_id_type<- Man page
gene_id_type<-,SingleCellExperiment-method Man page
get_ercc_anno Man page Source code
get_genes_by_GO Man page Source code
get_read_str Man page Source code
infer_gene_id_from_dbx Source code
infer_gene_id_from_parent Source code
infer_gene_ids Source code
organism Man page
organism,SingleCellExperiment-method Man page
organism.sce Man page Source code
organism<-,SingleCellExperiment-method Man page
plot_QC_pairs Man page Source code
plot_UMI_dup Man page Source code
plot_demultiplex Man page Source code
plot_mapping Man page Source code
rcpp_sc_demultiplex Source code
rcpp_sc_detect_bc Source code
rcpp_sc_exon_mapping Source code
rcpp_sc_exon_mapping_df_anno Source code
rcpp_sc_gene_counting Source code
rcpp_sc_trim_barcode_paired Source code
remove_outliers Man page Source code
scPipe Man page
scPipe-package Man page
sc_count_aligned_bam Man page Source code
sc_demultiplex Man page Source code
sc_demultiplex_and_count Man page Source code
sc_detect_bc Man page Source code
sc_exon_mapping Man page Source code
sc_gene_counting Man page Source code
sc_sample_data Man page
sc_sample_qc Man page
sc_trim_barcode Man page Source code
validObject Source code
validate_saf Source code
scPipe documentation built on Oct. 31, 2019, 6:01 a.m.