Results for "Estimate"
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...lly any genome assembler and any NGS read mapper that supports SAM format. Other features include support for multiple libraries and an option to estimate insert size distributions fro...2854 days ago
- ...embled, or to compare the quality of different assemblies. For comparing multiple assemblies of the same data-sets, VALET also reports an overall estimate of the likelihood a particula...
2783 days ago
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Bio++ : C Language libraries for your biological need
...K80, T92, F84, HKY85, TN93, GTR and more for nucleotides,JC, DSO78, JTT92 + any PAML-formated model description for proteins, with possibility to estimate equilibrium frequencies.Vario...3949 days ago
Genome Assembly Tools and Software - PART2 !!
...nships in a phylogenetic tree into account to estimate a possible ordering of the co...p;is an algorithm to assemble transcripts and estimate their expression levels from...sage EstimationConPADE is a tool used to estimate contig ploidy and allele dosa...2687 days ago
Top-level pages
Phylogenetic for Bioinformatics
Biologists estimate that there are about 5 to 100 million species of organisms living on Earth today. Evidence from morphological, biochemical, and gene sequence data suggest...3947 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...Wide Complex Trait Analysis; package program, command line interface; estimates variance by all SNPs; 5 main...JSON, Statistics ABSOLUTE Description: (Broad Institute); can estimate purity and ploidy to compute...2910 days ago
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Wire posts
News
- The American Cancer Society projects the numbers of new cancer cases and deaths expected each year in order to estimate the contemporary cancer burden, because cancer incidence and mor...
3723 days ago
Opportunity posts
Marie Curie PhD position available immediately
...lities. He will be in charge of the development and validation of an in silico virulence assay. This assay will target specific mRNAs in order to estimate the virulence potential of st...3300 days ago
Bio-Scripts
- # Count k-mer occurrence using Jellyfish 2.2.6 jellyfish count -t 8 -C -m 19 -s 5G -o 19mer_out --min-qual-char=? sread_1.fastq sread_2.fastq # points for a histogram jellyfish histo -o 19mer_out.histo 19mer_out #Plot results using R ##load the data into dataframe19 dataframe19
2265 days ago
Estimate Genome Size with Jellyfish and R
jellyfish count -t 8 -C -m 19 -s 5G -o 19mer_out --min-qual-char=? /common/Tutorial/Genome_estimation/sample_read_1.fastq /common/Tutorial/Genome_estimation/sample_read_...2247 days ago
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Tags
- Summary: GenomeScope is an open-source web tool to rapidly estimate the overall characteristics of a genome, including genome size, heterozygosity rate, and repeat content from unprocessed short reads. These features are essential for studying genome evolution, and help to choose para...
Tags: Bioinformatics, Analysis, NGS, GenomeScope, Genome, Stats, Estimate, Heterozygosity, repeat content, Statistical
2347 days ago
Is this right to say genome size with their contigs file size?
I usually report and estimate the genome size by looking into file size of the contigs. Is this right way?Tags: Genome, Size, Estimate
2572 days ago
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Comments
Comment on "Estimate Genome Size"
...nd identify the approximate peak # use find_valleys.pl to help pinpoint the actual peak find_valleys.pl fastq.counts_0.histo # estimate the size and coverage estimate_genome_size.pl --kmer=31 --pe...1899 days ago
- ...in the same directory. The genome size should be your best guess of the haploid genome size of what is being assembled. It is used primarily to estimate coverage in reads, NOT as the...
2100 days ago
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