Chromosome downloads freeware
Clear separation of the several concepts of the algorithm, like Gene, chromosome, Genotype, Phenotype, Population and FitnessFunction.
The user can specify multiple parameters before running the simulation, including the population number, the number of SNPs on a chromosome, the recombination rate, the number of blocks that will be simulated and more.
Diversity Maps is a Perl-based tool that can generate publication-quality, vector-based chromosome maps displaying differences in marker states between individuals.
* Mapping results can be viewed in any desired scale, from the read depth graph over an entire chromosome to detailed sequence alignments between reads and the reference sequence. Users easily navigate to regions of interest simply via click and drag or scrolling.
+eTE Supports single-end and paired-end reads
+eTE Allows any number of mismatches and one insertion/deletion of various lengths
If you click on a chromosome it will open in a chromosome viewing window allowing you to examine the genes more closely. The protein-protein interaction viewer allows you to navigate the interaction network for genes of interest.
Overlaying messenger RNA and protein expression data onto the interactome is a useful feature. Another section allows you to query the database and retrieve results in the form of a table.
The expression data ...
Gene, chromosome, Genotype, Phenotype, Population and FitnessFunction. for WindowsAll
SNP View is a useful and reliable utility that helps you to view SNP data and identify the regions of homozygosity.
With its intuitive interface, you have the possibility to easily view and analyze Affymetrix SN P array data, chromosomes and molecules.
You can access the portable version of the application here.
Fylogenetica is a lightweight application built in Java that enables you to build a phylogenetic level-1-network and its corresponding set of quartets.
A phylogenetic network allows you to view evolutionary relationships between DNA sequences, chromosomes, genes or species. Fylogenetica is an implementation of an algorithm for generating such a network.
GenSim is a lightweight and easy to use application designed to provide with a genetics simulation tool.
GenSim is based on the expression of genes in chicken, enabling you to add multiple animals with different characteristics and mate them to view the result.
cnvHiTSeq is a lightweight and easy to use application designed to provide you with a set of tools for processing BAM files and detecting CNVs.
cnvHiTSeq includes a BAM filtering tool, a BAM converter, an application to perform LOESS smoothing operations and more. It can consolidate the normalized libraries, split BAM files into individual sequencing libraries and process SAM files.