Man pages for wenjie1991/CellBarcode
Cellular DNA Barcode Analysis toolkit
| BarcodeObj | BarcodeObj object |
| bc_2df | Transforms BarcodeObj object into another data type |
| bc_auto_cutoff | Finds barcode count cutoff point |
| bc_barcodes | Gets barcode sequences |
| bc_cleanBc | Accesses cleanBc slot in the BarcodeObj object |
| bc_create_BarcodeObj | Create a BarcodeObj object from extracted barcodes data |
| bc_cure_cluster | Clean barcodes by editing distance |
| bc_cure_depth | Filters barcodes by counts |
| bc_cure_umi | Filters UMI-barcode tag by counts |
| bc_extract | Extract barcode from sequences |
| bc_extract_sc_fastq | Extract barcode from single-cell sequencing fastq file |
| bc_extract_sc_sam | Extract barcode from single-cell sequencing sam file |
| bc_messyBc | Accesses messyBc slot in the BarcodeObj object |
| bc_meta | Accesses and sets metadata in BarcodeObj object |
| bc_names | Access & update sample names in BarcodeObj & and BarcodeQcSet |
| bc_obj | A dummy BarcodeObj object |
| bc_plot_count | Plot for counts distribution |
| bc_plot_mutual | Barcode read count 2D scatter plot of sample combination |
| bc_plot_pair | Barcode read count 2D scatter plot for given pairs |
| bc_plot_single | Scatter plot of barcode count distribution per sample |
| bc_seq_filter | Remove low-quality sequence |
| bc_seq_qc | Evaluates sequences quality |
| bc_splitVDJ | Parse VDJ recombination (experimental) |
| bc_subset | Manages barcodes and samples in a BarcodeObj object |
| bc_summary_barcode | Summary and evaluate barcode diversity |
| bc_summary_seqQc | Summary barcodeQcSet |
| CellBarcode | DNA Barcode Analysis toolkit |
| format | Formats BarcodeObj object |
| parse_10x_sam | Parse 10X bam file |
| seq_correct | Sequence clustering |
| show | Show BarcodeObj object |
| subset | Subset the BarcodeQcSet |
