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bioc
RCAS:RNA Centric Annotation System
RCAS is an R/Bioconductor package designed as a generic reporting tool for the functional analysis of transcriptome-wide regions of interest detected by high-throughput experiments. Such transcriptomic regions could be, for instance, signal peaks detected by CLIP-Seq analysis for protein-RNA interaction sites, RNA modification sites (alias the epitranscriptome), CAGE-tag locations, or any other collection of query regions at the level of the transcriptome. RCAS produces in-depth annotation summaries and coverage profiles based on the distribution of the query regions with respect to transcript features (exons, introns, 5'/3' UTR regions, exon-intron boundaries, promoter regions). Moreover, RCAS can carry out functional enrichment analyses and discriminative motif discovery.
Maintained by Bora Uyar. Last updated 5 months ago.
softwaregenetargetmotifannotationmotifdiscoverygotranscriptomicsgenomeannotationgenesetenrichmentcoverage
6.14 score 29 scripts 1 dependentsbioc
rGADEM:de novo motif discovery
rGADEM is an efficient de novo motif discovery tool for large-scale genomic sequence data. It is an open-source R package, which is based on the GADEM software.
Maintained by Arnaud Droit. Last updated 5 months ago.
microarraychipchipsequencingchipseqmotifdiscoveryopenmp
4.95 score 56 scripts
jgraux
DepLogo:Dependency Logo
Plots dependency logos from a set of aligned input sequences.
Maintained by Jan Grau. Last updated 1 years ago.
1 stars 2.41 score 26 scripts