RNA-Seq De novo Assembly Using Trinity
Trinity, developed at the Broad In...of transcriptomes from RNA-seq data. Trinity combines three indep...rinity partitions the sequence data into many individual de Bruij...Inchworm assembles the RNA-seq data into the unique sequences of...n directory. Assemble RNA-Seq data like so: Trinity --seqType...3007 days ago
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Trimmomatic: A flexible read trimming tool for Illumina NGS data
Paired End: java -jar trimmomatic-0.35.jar PE -phred33 input_forward.fq.gz input_reverse.fq.gz output_forward_paired.fq.gz output_forward_unpaired.fq.gz output_revers...2984 days ago
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HOMER: Software for motif discovery and next-gen sequencing analysis
This tutorial covers topics independently...toring sequencing files (your own data or from public sources) Chec...g SAM/BAM alignment files Visualizing data in a genome browser RNA-Se...ing R/Bioconductor General Tips for Data Analysis Excel workarounds...2974 days ago
MEDEA: Comparative Genomic Visualization with Adobe Flash
As the number of sequence and annotated genomes grows la...r, the need to understand, compare, and contrast the data becomes increasingly importan...spot outliers is necessary in such large and complex data sets. More at http://ww...2973 days ago
GATB : Genome Analysis Toolbox with de-Bruijn graph
The Genome Analysis Toolbox with de-Bruijn graph (GATB) provides a set of highly efficient algorithms to analyse NGS data sets. These methods enable the analysis of data sets of any size on multi-cor...2971 days ago