Results for "frequencies"
Blogs
Computer simulation of genetic mechanism !!
...tecting recent effective population size reductions from allele data frequencies http://www.ensam.inra.fr/urlb...ulation tool for generating haplotype data with pre-specified allele frequencies and LD coefficients http://cr...2972 days ago
Bookmarks
YASS :: genomic similarity search tool
...imidine to pyrimidine [C<->T]) using different scoring schemes with bit-score and E-value evaluated according to the sequence background frequencies parameterizable output filte...2922 days ago
COPE: an accurate k-mer-based pair-end reads connection tool to facilitate genome assembly
An efficient tool called Connecting Overlapped Pair-End (COPE) reads, to connect overlapping pair-end reads using k-mer frequencies. We evaluated our tool on 30× simulated pair-en...2339 days ago
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Pages
Bio++ : C Language libraries for your biological need
...N93, GTR and more for nucleotides,JC, DSO78, JTT92 + any PAML-formated model description for proteins, with possibility to estimate equilibrium frequencies.Various codon models: Muse &a...3945 days ago
Genome Assembly Tools and Software - PART2 !!
...lustering reads in small windows of the alignment, reconstructing a minimal set of global haplotypes that explain the reads, and estimating the frequencies of the inferred haplotypes....2683 days ago
Top-level pages
List of generic simulation software/tools/resource with brief description and homepage !!!
...tecting recent effective population size reductions from allele data frequencies http://www.ensam.inra.fr/urlb...ulation tool for generating haplotype data with pre-specified allele frequencies and LD coefficients http://cr...3734 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...link (estimates parameters including recombination fractions, allele frequencies, penetrances, etc) Input: pe...rotein positions and amino acid changes, conservation scores, HapMap frequencies, PolyPhen predictions and cli...2906 days ago
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Wire posts
Bio-Scripts
Genetic Algorithms demonstration with word DNA in Perl
...e them @dictionary = grep { length($_) > 1 && length($_) < $max_entry_length } map { uc } @dictionary; # build the letter frequencies hash (remember, all letters a...2369 days ago
Perl script to find coding regions in DNA sequences
...# open the first file: table of codon usage frequencies if (!open(PROPCODONS,"< $f...e opened\n"; exit(1); } # load the frequencies of codon usage into the hash...robability computed from the table of codon frequencies divided # by the random prob...2152 days ago
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Tags
- Tallymer is based on enhanced suffix arrays. This gives a much larger flexibility concerning the choice of the k-mer size. Tallymer can process large data sizes of several billion bases. We used it in a variety of applications to study the genomes of maize and other plant species. In particu...
Tags: Tallymer, method, compute, K-mer, frequencies, application, annotate, large, repetitive, plant, genomes
2268 days ago
Comments
- ...A sequencing data for raw data, alignment, and variant calling. qrqc qrqc. Quickly scans reads and gathers statistics on base and quality frequencies, read length, and frequent se...
2134 days ago
