Josh Stolz's repositories
Codon-Count
Allows user to count the codons at the beginning of a read in a fastq file. This is useful in understanding digestion bias for chromatin
Codon-Count-Sam
Counts the frequency of a codon a the start of a read in sam file.
Midpoint
Obtains the midpoint of all reads in a selected sam file. This is useful for creating a v-plot
N-queens
A modification of an 8 queens problem. Solves a chessboard for any number of queens where they don't touch diagnoally or horizontally on a chessboard. It then prints all possible combinations.
Read-Length-Distribution
Creates table of read lengths and the frequency at that length in a sam file.
RNA-fold-change-significance
The code loops through all possible permutation in a RNA data set creating a statistical test for which genes change expression in a non-random fashion. The program is set to a log fitted line but can be easily modified to suit your data.
Vplot
Creates a vplot of entire sam file using Matlabplot.