Function reference • SeedMatchR

All functions

SeedMatchR(): Find seed matches in genomic features

check_gene_list_overlap(): Check if input gene lists overlap

de_fc_ecdf(): Plot the ECDF for differential expression analysis log2(Fold Changes)

download_parse_file(): Download and parse DESeq2 output from GSE184929

ecdf_stat_test(): Test for differences in log2(Fold Change) ECDFs between two gene lists using the stats package

filter_deseq(): Filter DESEQ2 Results for SeedMatchR

get_example_data(): Download example DESeq2 data from GEO

get_feature_seqs(): Get transcripts features and feature sequences

get_seed(): Get the target seed sequence given a canonical seed name and input sequence

load_example_data(): Load example DESeq2 data into the environment

load_species_anno_db(): Load species specific AnnotationDb

plot_seeds(): Plot the Guide Strand with different optional seeds