Fragment Analysis in R
complementary tools
Fragment analysis and automatic scoring
complementary tools
complementary tools
Scores to JoinMap converter
Ladder corrector attached to R environment
Ladder detection and attachment to R environment
complementary tools for Fragman
Letter to JoinMap code converter
Number to Letter code converter
Assesing several plants with an overview
Assesing several plants with an overview
plot form fsa files stored with storing.inds
Applying pullup to channels/colors
Arrange data converted to joinmap code into a joinmap readable file
complementary tools for layout
Peak search by first derivatives
Ladder detection by correlation or confidence intervals
Ladder detection by correlation or confidence intervals
Read ABIF formatted files
Finding the real peaks
Checking and correcting saturated peaks
Fragment analysis scoring
Separating peaks by a shift window
Extracting channel information
Customizing thresholds
Applying the fourier transformation to a data frame
Creating color with transparency
Performs fragment analysis using genetic data coming from capillary electrophoresis machines. These are files with FSA extension which stands for FASTA-type file, and .txt files from Beckman CEQ 8000 system, both contain DNA fragment intensities read by machinery. In addition to visualization, it performs automatic scoring of SSRs (Sample Sequence Repeats; a type of genetic marker very common across the genome) and other type of PCR markers (standing for Polymerase Chain Reaction) in biparental populations such as F1, F2, BC (backcross), and diversity panels (collection of genetic diversity).