Results for "gaps"
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About me: ...alysis capability of genomics data over other forms of biological data. ArrayGen constantly strives to develop new solutions, and plug the existing gaps in the technological advancem...2717 days ago
Blogs
How to Prepare your Bioinformatics CV ?
...n your current or last position, keep details brief i.e. the name of the company, job title, period of employment and the job. Be sure there are no gaps in your career history - unle...3382 days ago
Bookmarks
Resolving the complexity of the human genome using single-molecule sequencing
...most complete mammalian reference assembly yet more than 160 euchromatic gaps remain and aspects of its str.../www.genomeweb.com/sequencing/team-uses-single-molecule-sequencing-close-gaps-chart-complexity-human-refere...3229 days ago
- ...ces Small indels Larger indel or block substitution events Gap filling Identification of local misassemblies, including optional opening of new gaps More at https://github.com...
3017 days ago
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Files
Evaluation of genome assembly software based on long reads
...cing analyses, to create detailed maps of structural variations in many species. Also, these new technologies have been used to fill in many of the gaps in the human reference genome...1928 days ago
Pages
Bio++ : C Language libraries for your biological need
...d.Support for rate-across sites models, with virtually any probability distribution, allowing for invariant classes.Covarion models.Model including gaps.Global clock tree likelihood...3956 days ago
Genome Assembly Tools and Software - PART2 !!
...h quality sequence by ordering contigs, closing gaps, correcting sequence errors a...ap Elimination) is a software designed to close gaps in any draft assembly using I...clude better assembled repetitive regions, less gaps and higher accuracy for the r...2694 days ago
Top-level pages
Genome Assembly Tools and Software - PART1 !!
...ken assembly based on the error calls. GapFiller 1.10 – Close Gaps within Pre-assembled Scaffolds GapFiller is a stand-alone program for closing gaps within pre-assembled scaffold...2694 days ago
Tools for bacterial whole genome annotation
...BACAS which classifies and orientates contigs and estimates the sizes of gaps between them; (ii) IMAGE uses paired-end reads to extend contigs and close gaps within the scaffolds; (iii) I...2340 days ago
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Wire posts
News
Biggest Human Brain Project (HBP) launched!!!
"In neuroscience, the project will use neuroinformatics and brain simulation to collect and integrate experimental data, identifying and filling gaps in our knowledge, and prioriti...3870 days ago
Phased Human Genome Assembly !
The new publicly available assembly (PacBio HG00733) has the fewest gaps of any human genome assembly, with more than half of the genome contained in gapless sequence at least 2...2044 days ago
ResearchLabs posts
ArrayGen Bioinformatics Genomics Group
...alysis capability of genomics data over other forms of biological data. ArrayGen constantly strives to develop new solutions, and plug the existing gaps in the technological advancem...3515 days ago
Bio-Scripts
Create genome scaffolding with Perl
#!/usr/bin/perl use warnings; use strict; use English; use Pod::Usage; ## uses pod documentation in usage code use Getopt::Long qw(:config auto_version auto_h...2317 days ago
- ...g score" /home/urbe/Tools/Reapr_1.0.18/reapr score -P 5 00.assembly.fa.gaps.gz 00.in.bam 01.stats $fcdcut...g score" /home/urbe/Tools/Reapr_1.0.18/reapr score -P 5 00.assembly.fa.gaps.gz 00.in.bam 01.stats $fcdcut...
2108 days ago
Tags
GAPPadder: A Sensitive Approach for Closing Gaps on Draft Genomes with Short Sequence Reads
This software is provided ``as is” without warranty of any kind. In no event shall the author be held responsible for any damage resulting from the use of this software. The program package, including source codes, executables, and this documentation, is distributed free of charge. If you u...Tags: GAPPadder, Sensitive, Approach, Closing, Gaps, Draft, Genomes, Short, Sequence, Reads, Genome, Assembly
2192 days ago
- GMcloser uses likelihood-based classifiers calculated from the alignment statistics between scaffolds, contigs and paired-end reads to correctly assign contigs or long reads to gap regions of scaffolds, thereby achieving accurate and efficient gap closure. We demonstrate with sequencing data from...
Tags: GMcloser, close, gaps, assemblies, accurately, likelihood-based, selection, contig, long-read, alignments, Genome, Assembly
2164 days ago
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Comments
- ...NA reads, transcript-annotated reads, strand specificity), coverage (like mean coverage, mean coefficient of variation, 5’/3’ coverage, gaps in coverage, GC bias) and exp...
2146 days ago
Comment on "Basic command-line to run BLAST"
..._vaga.v2.pep.fa -db mouse.protein.fa -out seeHumAvagaAln2_mouse.tab -evalue 1e-20 -outfmt '6 qseqid qlen qstart qend sseqid slen sstart send pident gaps evalue length frames qcovs bi...2253 days ago
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