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Public Databases for Bioinformatics !
...an: Bickel and SGE server 64 AMD core 256GB RAM 200GB of SSD storage 12TB RAID5 local storage Filesystem: /users/$USER default home directory full backups nightly nfs m...1154 days ago
UCSC Genome Browser and Blat software !
This directory contains Genome Browser and Blat application binaries built for standalone command-line use on various supported Linux and UNIX platforms. To determine which...3014 days ago
RNA-Seq De novo Assembly Using Trinity
.................................................................. Download Trinity here. Build Trinity by typing 'make' in the base installation directory. Assemble RNA-Seq data like...2980 days ago
- First step: Install & load “VennDiagram” package. # install.packages('VennDiagram') library(VennDiagram) Second step: Load data Add filepath if “catdoge.csv” is not in working-directory. d <- read.csv("catdoge.csv")
2947 days ago
Stand-alone programs for Bioinformatician
This directory contains applications for stand-alone use, built specifically for a Linux 64-bit machine. For help on the bigBed and bigWig applications see:http://genome.u...2920 days ago
Linux command line exercises for NGS data processing
...the frequently used tools for NGS analysis as well as giving experience in writing one-liners. Copy the required files to your current directory, change directory (cd) to the linuxTutorial fol...2889 days ago
- We advise to run first the TEdenovo pipeline but it is not compulsory. We suppose you begin by running the TEannot pipeline on the example provided in the directory "db/" rather than directly on your own genomic sequences. Thus, from now on, the project name is "DmelChr4".
2832 days ago
- ...generates sequence files from the reads, it does so in a standardized directory hierarchy. Many of the post-processing scripts rely on this directory hierarchy, so do not modify i...
2754 days ago
Maq: Mapping and Assembly with Quality
...a bacterial genome. Download maq, maq-data and maqview at the download page. Copy maq, maq.pl and maq_eval.pl to the $PATH or to the same directory. Simulate diploid reference...2736 days ago
- ...eeds to first map reads to contigs (instead of providing .sam files). The arguments accepted by ScaffMatch are: -w) Working directory -- this is the directory where ScaffMatch files are st...
2715 days ago
