Man pages for Close-your-eyes/igsc
Immunoglobolin sequences from scRNAseq
| algnmt_plot | Plot sequence alignments as ggplot object |
| align_imgt_ref_to_TCR_seq | Align IMGTs reference sequences to your TCR sequence |
| attach_imgt_alleles | Find best matching IMGT reference alleles for TCR V and J... |
| check_ref_seq_for_matches | Check a vector of sequences for equality on each position |
| cigar_to_position | Convert cigar string to data frame with matched postions and... |
| collapse_duplicate_sequences | Have a set of sequences checked for duplicates |
| compare_seq_df_long | Title |
| consecutive_distinct_seq | Get the longest consecutive stretch of distinct sequence |
| get_seqs_from_feature_df | Get sequences based on data generated with webscrape_ncbi |
| global_align | (Semi-) Global alignment with Needleman-Wunsch algorithm |
| imgt_tcr_segment_prep | Prepare a data frame with TCR gene segment reference data... |
| MultiplePairwiseAlignmentsToOneSubject | Separately align multiple pattern sequences to one subject |
| pick_randomNames | Pick n random names from the randomNames package |
| printPairwiseAlignment | Print pairwise alignments of DNA or AA to console or txt file |
| read_cellranger_outs | Read necessary file from 10X Genomics' cellranger output and... |
| read_cellranger_outs2 | Read and preprocess the contig_annotation file from 10X... |
| read_fasta | Read sequences from a fasta-formatted file |
| vdjdb_hits | Compare CDR3s from sequencing to known CDR3s in the vdjdb |
| webscrape_ncbi | Scrape data from NCBI nucleotide pages |
| write_fasta | Write sequences to a file in fasta format |
