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The ligand mol2 coordinate files were generated in ArgusLab.
A total of thirteen separate taxonomically structured files were generated in this way.
Cell intensity files (CEL files) were generated in the program GCOS from Affymetrix.
Six sequence files were generated in FASTQ format (sequence read plus quality information in Phred format); each file corresponded to the brain tissue from which the RNA originated.
Files were generated in GFF3 format and uploaded into GBrowse.
Cell intensity files were generated in the GeneChip Command Console Software (AGCC) (Affymetrix).
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As with each T_GAIN upgrade, the previous epoch's interpolation files are finalized with the following one, while the new epoch's files are generated in a "flat," non-interpolating form in anticipation of the current epoch.
As with each T_GAIN upgrade, the previous epoch's interpolation files are finalized with the following epoch, while the newly completed epoch's files are generated in a "flat," non-interpolating form in anticipation of the current epoch's completion in the future.
All the output files are generated in standard formats, such as BAM and VCF (Danecek et al., 2011; Li et al., 2009).
Summary statistics of FASTA (and QUAL) or FASTQ files are generated in tabular and graphical form and sequences can be filtered, reformatted and trimmed by a variety of options to improve downstream analysis.
The model and the corresponding SBML file were generated in appr.
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