About GobyWeb

Copyright ©2009-2011 - All Rights Reserved
Institute for Computational Biomedicine
Weill Medical College of Cornell University

See the Goby pages for details.

GobyWeb application created by Kevin C. Dorff and Fabien Campagne.

The following software tools were used to develop GobyWeb:

Version Details

Plugins

The following plugins are installed:

RESOURCE/STAR (2.1.2) num-rules: 0
RESOURCE/STAR (2.1.4) num-rules: 0
RESOURCE/STAR (2.1.1) num-rules: 0
RESOURCE/GSNAP with Goby support (2012.05.23) num-rules: 0
RESOURCE/Samtools (0.1.14) num-rules: 0
RESOURCE/Bowtie 2 (2.0.0.5) num-rules: 0
RESOURCE/BWA with Goby support (0.5.9.16.1) num-rules: 0
RESOURCE/Samtools (0.1.18) num-rules: 0
RESOURCE/Bismark (0.7.4) num-rules: 0
RESOURCE/Minia (20120626) num-rules: 0
RESOURCE/DESeq script (2012.07.25) num-rules: 0
RESOURCE/GSNAP with Goby support (2011.07.07) num-rules: 0
RESOURCE/Trinity (20120518) num-rules: 0
RESOURCE/GSNAP with Goby support (2011.11.17) num-rules: 0
RESOURCE/BWA with Goby support (0.5.9.16.2) num-rules: 0
RESOURCE/Goby (20121012122417) num-rules: 0
RESOURCE/Illumina adapters (1.0) num-rules: 0
RESOURCE/Goby (20120404171925) num-rules: 0
RESOURCE/EdgeR script (2012.08.24) num-rules: 0
RESOURCE/R language (2.14.1) num-rules: 0
RESOURCE/Last (230) num-rules: 0
RESOURCE/Last (189) num-rules: 0
RESOURCE/Goby (20120130000000) num-rules: 0
RESOURCE/Goby (fixed indels) (20130205113429) num-rules: 0
RESOURCE/Goby (20120214142542) num-rules: 0
RESOURCE/Goby (fixed indels) (20130127102507) num-rules: 0
RESOURCE/GSNAP with Goby support (2012.05.22) num-rules: 0
RESOURCE/Goby (20120302000000) num-rules: 0
RESOURCE/Goby (20120113112405) num-rules: 0
RESOURCE/IGVTools (1.5.16) num-rules: 0
RESOURCE/Extract Non-matching Reads (2012.06.25) num-rules: 0
RESOURCE/Parallel last (1.1) num-rules: 0
RESOURCE/GSNAP with Goby support (2012.01.11) num-rules: 0
RESOURCE/GSNAP with Goby support (2011.10.16) num-rules: 0
RESOURCE/Goby (20120111141904) num-rules: 0
RESOURCE/Scala (2.9.2) num-rules: 0
RESOURCE/BWA with Goby support (0.5.9.16) num-rules: 0
RESOURCE/Goby (20120216154520) num-rules: 0
RESOURCE/Goby (20120301165646) num-rules: 0
ALIGNER/GSNAP (Goby output) (1.1) num-rules: 0, num-needs: 11
ALIGNER/BWA Hi-C (Goby) (1.0.1) num-rules: 0, num-needs: 10
ALIGNER/Bismark Bisulfite Mapper (1.1) num-rules: 0, num-needs: 10
ALIGNER/GSNAP (Goby output), 2011-07-07 (1.0) num-rules: 0, num-needs: 11
ALIGNER/Last bisulfite v2 (2.0) num-rules: 0, num-needs: 10
ALIGNER/GSNAP (BAM output) (1.0) num-rules: 0, num-needs: 11
ALIGNER/STAR (Goby output) (1.2) num-rules: 0, num-needs: 12
ALIGNER/Lastag (1.1) num-rules: 0, num-needs: 10
ALIGNER/Last bisulfite (1.1) num-rules: 0, num-needs: 10
ALIGNER/BWA (BAM output) (1.0) num-rules: 0, num-needs: 10
ALIGNER/Last (1.1) num-rules: 0, num-needs: 10
ALIGNER/BWA with Goby support (1.0) num-rules: 0, num-needs: 10
ALIGNER/BWA (1.0) num-rules: 0, num-needs: 10
ALIGNMENT_ANALYSIS/Bismark Methylation Extraction (1.0) num-rules: 0, num-needs: 15
ALIGNMENT_ANALYSIS/Sequence Variation Analyses with Goby (1.0) num-rules: 0, num-needs: 14
ALIGNMENT_ANALYSIS/Splicing differential usage (1.2.1) num-rules: 0, num-needs: 14
ALIGNMENT_ANALYSIS/Differential Expression Analysis with Goby (1.1) num-rules: 2, num-needs: 15
ALIGNMENT_ANALYSIS/Methylation analysis at base-level resolution (1.3.1) num-rules: 0, num-needs: 14
ALIGNMENT_ANALYSIS/Methylation analysis over annotated regions (1.6.3.4) num-rules: 0, num-needs: 14
ALIGNMENT_ANALYSIS/Sequence Variation Analyses with samtools (1.0) num-rules: 0, num-needs: 14
ALIGNMENT_ANALYSIS/Differential Expression Analysis with DESeq (1.1) num-rules: 2, num-needs: 15
ALIGNMENT_ANALYSIS/Contaminant identification (1.7) num-rules: 0, num-needs: 15
ALIGNMENT_ANALYSIS/Indel counts with Goby (1.2) num-rules: 0, num-needs: 14
ALIGNMENT_ANALYSIS/Differential Expression Analysis with EdgeR (1.0) num-rules: 2, num-needs: 15

Memory and Process Details