The Tandem Repeats Finder software package [26] was used to analyze minisatellites and other repeated regions.
Giordano et al. [ 7] presented their fragmentation analysis based on a Transposon Cluster Finder (TCF) software package.
Transfection of both ribonucleic acid reagents or plasmids mentioned above and the reporter plasmids in a Cignal Finder Pathway Reporter package (Qiagen, Hilden, Germany) was performed according to the manufacturer's instruction.
The spectrometer consists of two bismuth germanate scintillators (BGO) and an XIA LLC Digital Gamma Finder (DGF /Pixie-4 software anDGF /Pixie-4ge.
PCGs were determined and translated into putative proteins using the ORF finder in the DNAStar package (DNAStar Inc., Madison, WI, USA).
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In this pipeline, we present the Shared Mutation Pattern Finder (SMuPFi), a novel algorithm package that analyses cooccurring mutation patterns with a series of supporting tools inside the package.
Here, we present CAFE Chromosomal Aberration Finder in Expression data as an R package for the detection of gross chromosomal gains and losses from expression microarrays, with a resolution up to cytoband level.
Quantitative colocalization was analyzed with the colocalization finder plugin of the Fiji image processing package based on ImageJ (US National Institutes of Health, Bethesda, MD, USA).
Publicly available (Gene Ontology (GO) annotations from GO Term Finder and GO Term Mapper), UNIPROT, STRAP, and proprietary software packages including Ingenuity Pathway Analysis IPAA, Ingenuity Systems) and Metacore (GeneGo Inc).
Tables showing the correlation between R-loops formation predicted by the QmRLFS-finder (Wongsurawat et al., 2012 ) or SkewR package (Ginno et al., 2012 ) and the presence of MELs.
