Sentence examples for package settings from inspiring English sources

Circular binary segmentation [36] was performed using the R-based package "DNAcopy" to segment the data into distinct regions of change using default package settings.

The p-values generated in these comparisons were corrected for multiple testing by controlling the False Discovery Rate (FDR) with the Q-value procedure in the Q-value 1.0 package (default settings) of the R software [26].

We assembled data generated by 454 using the Newbler software package with all settings set to default and the '-finish' mode invoked.

For health care coverage, the key words used were gender or women and/or essential service-packages, priority-setting and health.

The MS/MS identifications were obtained using in the Bioworks 3.2 (peak picking by Extract_msn, default settings) software package (Thermo Fisher Scientific, Germany), and its' SEQUEST feature, using minimum XC scores of 1.8, 2.2 and 3.75 for reliable identification of single, double and triple charged ions respectively in the UniProt-database (version 56.0, human taxonomy (20069 entries)).

Input windows were prepared with the rnazWindow.pl script of the RNAz package with default settings.

In cases where Present/Absent filtering was conducted, P/A call for each probe set on each chip was obtained using the MAS 5.0 method implemented in the affy package with default settings unless specified.

Maximum Likelihood trees were inferred using PROML from the PHYLIP package using default settings.

Multiple sequence alignments were constructed with the MUSCLE algorithm integrated in MEGA6 package using default settings.

The RNA-Seq analysis was performed using the Tuxedo software package with default settings.

The preprocessing of Illumina data was performed using the BeadStudio package with default settings.