Search Results for "refind-bin"
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Showing 8 open source projects for "refind-bin"
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Bt_proteindatabase
Specific Bacillus thuringiensis protien Blast database
A specific protein database of insecticidal genes (Cry, Vip, Sip, Mtx-like, Bin-like and other protins) from the Bacillus thuringiensis toxin nomenclature. -
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MaxBin
An automatic tool for binning metagenomics sequences
...For users' convenience MaxBin will report genome-related statistics, including estimated completeness, GC content and genome size in the binning summary page. Users could use MEGAN or similar software on MaxBin bins to find out the taxonomy of each bin after the binning process is finished. The most current version is 2.2.7. MaxBin was published on Microbiome journal (2:26)! Please cite the Microbiome paper if you use MaxBin in your work. -
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PromKappa 2.0 (DNA patterns in Java)
PromKappa 2.0 (Java source code and bin)
A Java adaptation of DNA patterns based on the article "Eukaryotic genomes may exhibit up to 10 generic classes of gene promoters". by Ilie Guta (Java source code for DNA patterns) -
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miRStat
identification of common sets of microRNAs for groups of genes
...This Python application is based on the TargetScan 6.2 microRNA target prediction data. Conserved and Nonconserved site context+ scores files are required (unzip and place to directory with program). Available at http://targetscan.org/cgi-bin/targetscan/data_download.cgi?db=vert_61 -
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GenNon-h
Simulating non-homogeneous multiple sequence alignments
...Based on the input model and a phylogenetic tree in the Newick format (with branch lengths measured as the expected number of substitutions per site), the algorithm produces DNA alignments of desired length. GenNon-H is a collaborative project described at http://genome.crg.es/cgi-bin/phylo_mod_sel/AlgGenNonH.pl. -
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T-lex
Transposable Element annotation using Next-Generation Sequencing data
...On top of the genotyping, this pipeline also allows to re-annotate TEs and discover traces of transposition events called Target Site Duplication (TSD). The other T-lex pipeline discovers and annotates de novo TE insertions. http://petrov.stanford.edu/cgi-bin/Tlex.html -
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This library is a lightweight implementation of genetic algorithm, contains the most popular types of chromosomes and the basic algorithms for selection, elitism, crossing and mutation.
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Software package for biological sequence analysis and better organization of the sequence data. Uses a modified version of alistat from Sean Eddy's group Squid package (http://selab.wustl.edu/cgi-bin/selab.pl?mode=software)
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