Sentence examples for packages to compare from inspiring English sources
We employed two different software packages to compare the overlap of peak calls between datasets, with very similar results from each.
This is clearly stated in the article about the SQUAD software by Di Cara et al [ 34]: " With the increase of published signaling networks, it will be possible in the future to realize a benchmark among these software packages to compare their strengths and weaknesses.
We calculated D' and r following the standard procedures [56] [58], using p1 = (NXαYβ+NXαY0)/N, q1 = (NXαYβ+NX0Yβ)/N, x11 = NXαYβ/N, where N = NXαYβ+NXαY0+NX0Yβ+NX0Y0.Finally, we used Wilcoxon rank sum test (wilcox.test function in the R package) to compare different types of mutation pairs with respect to their covariation score (e.g.gD').g
Read counts were analyzed in R using the DESeq package to compare counts of reads aligned to a given reference contig [ 36].
We then used Bioconductor's IRanges package to compare those cDNA positions to the set of OR gene domains as defined above.
To install the "heatmap3" package, type the following command in R: install.packages("heatmap3") install.packages("heatmap3") First, we performed differential analysis by the "edgeR" [ 8] package to compare the gene expression between triple negative samples versus nontriple negative samples.
All analyses were performed with R version 2.13.1.The R package to compare groups (1.0) [ 20] was used to compare the different CKD stages and the R package rmeta (version 2.16) for generating forest plots.
Normalization was applied using Bioconductor package in R by RMA, and all the expression values were converted to logarithms base 2. We then used LIMMA package to compare signals from control and well-watered inflorescences.
We used the more traditional make.heatmap1 function distributed in the R-project NeatMap package to compare the expression profiles of lncRNAs and annotated mRNAs (FPKM >0) during the 56-hour time course.
And highlighting all of an executive's financial benefits as a single number was supposed to make executive pay packages easier to compare to each other.
We performed Kruskal-Wallis rank sum tests, implemented with the kruskal.test function of the R stats package [35], to compare the rank of fungal species in the nested structures for the different life-history strategies.
