We need to align millions short reads to specific genomes, after we get the Next Generation Sequencing data in fastq format from Illumina Highseq machine, or color space format from SOLid. These data normally contain several, to a couple hundreds … Continue reading
Galaxy can be installed locally.
More information will be provided later……
IGV is multi-platform software. To start IGV, you need to install JAVA 6 or later. Following is quoted from http://www.broadinstitute.org/igv/ Integrative genome viewer is a high-performance visualization tool for interactive exploration of large, integrated genomic datasets. It supports a wide … Continue reading
To install and run cufflinks and cuffdiff, please follow the manual and Nature Protocol. The simple way is run the pre-compiled binary files, you just need to extract the files and put them in the path, and that is what I … Continue reading
Bowtie Bowtie2 Tophat Cufflinks STAR CGRL seminar MACS or MACS2 SeqAnswer
Ubuntu is a computer operate system distributed as a free and open source software, it is most popular Linux system for personal desktop/laptop. Many RNA-seq and/or CHIP-seq analysis software are developed on Linux system. To install and run those software, … Continue reading
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