RNA-Seq De novo Assembly Using Trinity
...ptomes from RNA-seq data. Trinity combines three independent software modules: Inchworm, Chrysalis, and Butterfly, applied sequentially to process large volumes of RNA-seq reads. Tri...3009 days ago
REAPR: a universal tool for genome assembly evaluation
...locate mis-assemblies. REAPR works best using mapped read pairs from a large insert library (at least 1000...ert Illumina library is also available, REAPR can combine this with the large insert library in order to sc...2994 days ago
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2975 days ago
HOMER: Software for motif discovery and next-gen sequencing analysis
...-Seq De novo transcript discovery and differential analysis with Cufflinks Differential expression analysis with R/Bioconductor Clustering of large expression datasets (microarr...2975 days ago
CANU: Assembling Large Genomes with Single-Molecule Sequencing and Locality Sensitive Hashing.
Canu is a fork of the Celera Assembler designed for high-noise single-molecule sequencing (such as the PacBio RSII or Oxford Nanopore MinION). The software i...2958 days ago
MEDEA: Comparative Genomic Visualization with Adobe Flash
As the number of sequence and annotated genomes grows larger, the need to understand, compare, and contrast...n visual system to detect trends and spot outliers is necessary in such large and complex data sets. More...2974 days ago
Smash: An alignment-free method to find and visualise rearrangements between pairs of DNA sequences
...e patterns are represented with several HSV values (only value varies). The method can perform both in small- and large-scale. Nevertheless is more directed to large-scale since that the main aim...2974 days ago
2961 days ago
RCircos: an R package for Circos 2D track plots
...to make Circos 2D track plots with R and could be easily integrated into other R data processing and graphic manipulation pipelines for presenting large-scale multi-sample genomic re...2951 days ago