DistG counts the length of fasta sequences and make a graphical representation about. There are two king of graphs. The first is the distribution graph, giving an overview of all read fasta files (sequences) so far. The second graph displays a specific file’s counting as a set of rectangles.
The DBC software is an alternative method for organizing sequence data into operational taxonomic units (OTUs) for next-generation sequencing technologies, such as Illumina. The focus of this method is to identify sequences that are genetically and ecologically similar to group them, while keeping ecologically distinct organisms apart, regardless of sequence identity.
dbOTU3 is a new implementation of dbOTU that is faster and more user-friendly.
IDCalc was developed to provide a simple way to view the expected isotope distribution for biological molecules measured by mass spectrometry. The program also includes the the ability to consider enriched stable isotopes.
Kubinyi, Analytica Chimica Acta, 247 (1991) 107-119.
The C, H, O, and N isotope abundances are specific to biological molecules
(Dwight E. Matthews personal communication)
GMD is an R package to assess the similarity between spatial distributions of read-based sequencing data such as ChIP-seq and RNA-seq. GMD calculates the optimal distance between pairs of normalized signal distributions, optionally sliding one distribution over the other to ‘align’ the distributions. GMD also provides graphical and downstream clustering tools.
The CellOrganizer project provides tools for :learning generative models of cell organization directly from images/ storing and retrieving those models in XML files/ synthesizing cell images (or other representations) from one or more models
DNC-MIX models the distribution of the gene expression profile of a test sample as a mixture, with each component characterizing the expression levels in a class, and assigns a class label to each test sample
CENTDIST is a novel web-application for identifying co-localized transcription factors around ChIP-seq peaks. Unlike traditional motif scanning program, CENTDIST does not require any user-specific parameters and the background. It automatically learns the best set of parameters for different motifs and ranks them based on the skewness of their distribution around ChIP-seq peaks.