Results for "assemblies"
Blogs
Software and Tools to detect structure variation with long reads !!
...reenInversions) Quality metric for SV calls based on number of local assemblies supporting each call Higher sensitivity for SV calls using tiled local assemblies across the entire genome inst...2592 days ago
List of genome announcement, notes and reporting journals
...permitted) describing novel data sets from high-throughput analysis of genotypes, phenotypes, gene expression, metabolomes, proteomes or genome assemblies.Standard metrics for data qua...1992 days ago
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Bookmarks
- ...gnment metrics. HapSolo evaluates candidate primary assemblies using BUSCO scores and then distinguishes among candidate assemblies using a cost function. The co...imbing to minimize cost over thousands of candidate assemblies.
1076 days ago
- ...a software tool which can be used to: Automatically improve draft assemblies Find variation among strains...or block substitution events Gap filling Identification of local misassemblies, including optional opening o...
2993 days ago
- +115 more Bookmarks
Files
Evaluation of genome assembly software based on long reads
TGS technologies have been used to produce highly accurate de novo assemblies of hundreds of microbial genomes and highly contiguous reconstructions of many dozens of plant and animal g...1904 days ago
Pages
Genome Assembly Tools and Software - PART2 !!
...s. GAM-NGS 1.1b – Genome Assemblies Merger for Next Generation Se...sp;is able to merge two or more assemblies and it rteturns an improved a...es in a short time and produces assemblies similar to Velvet or Ray in q...PASHA is able to produce better assemblies with comparable genome covera...2670 days ago
Awesome perl frameworks, libraries and software - PART 4
...taylorchu/baker - The bash static site generator with real template engine sujaikumar/assemblage - Tools for working with second gen assemblies, fasta sequences, etc obfusc...2478 days ago
Top-level pages
Useful Publications and Websites for Deep Sequencing Data Analysis
...-73, 2010. PubMedCentral High-quality draft assemblies of mammalian genomes from mas...comparison of annotation in two Bos taurus assemblies. Florea et al., PLoS On...SEM software package] Comparing genomes and assemblies; variant detection Versatil...3763 days ago
Commercial and public next-gen-seq (NGS) software
...short reads generated with the Illumina platform to reference genome assemblies; in a fast and memory-efficie...HS is a whole genome shotgun assembler that can generate high quality assemblies from short reads. Assemblies...3503 days ago
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Wire posts
News
- ...ption for graph tracks Generic Table View: new tutorial added Bug Fixes and Improvements Project Tree View: Genomic Collections/Assemblies now show accessions, not just...
2849 days ago
- A new “Download assemblies” button is now available in the Assembly ...ft side of screenshot below) to refine the set of genome assemblies of interest. Then, just open the “Download assemblies” menu, choose the sourc...
2531 days ago
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Opportunity posts
Post-doctoral Research Assistant in Genetics
...-genome sequences and existing algorithms. The post holder will use cutting edge computational and laboratory approaches to generate chromosomal assemblies for sequenced genomes, study...3606 days ago
Postdoctoral Research Assistant at RVC
...., Proc Natl Acad Sci USA. 2013. 110 (5)). The post holder will use cutting edge computational and laboratory approaches to generate chromosomal assemblies for sequenced genomes, study...2111 days ago
ResearchLabs posts
Computational Structural Biology Lab IITKGP
...f research: Molecular recognition: Protein-protein, Protein-Nucleic acid and Protein-ligand interactions. Studies on multi-component protein assemblies and protein interactions netw...3214 days ago
Bio-Scripts
- ...ols/trinityrnaseq-Trinity-v2.6.6/trinity_out_dir/Trinity.fasta ################################################################### Trinity assemblies are written to /home/urbe/Too...
2111 days ago
- ...Number of threads to use (default: 8) --merge-assemblies= Merge best contigs from multiple assemblies into...[ INFO] 2018-07-13 14:54:40 : Writing analysis results to assemblies.csv
2107 days ago
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Tags
GAM-NGS: genomic assemblies merger for next generation sequencing
GAM-NGS is a tool able to merge two or more assemblies in order to improve contiguity and correctness. It can be used on all NGS-based assembly projects and it shows its full potential with multi-library Illumina-based projects. With more than 20 available assemblers it is hard to select the best...Tags: GAM-NGS, Genomic, Assemblies, Merger, Sequencing, NGS
2527 days ago
npScarf: Scaffolding and Completing Assemblies in Real-time Fashion
npScarf (jsa.np.npscarf) is a program that scaffolds and completes draft genomes assemblies in real-time with Oxford Nanopore sequencing. The pipeline can run on a computing cluster as well as on a laptop computer for microbial datasets. It also facilitates the real-time analysis of position...Tags: npScarf, Scaffolding, Completing, Assemblies, PacBio
2523 days ago
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Comments
- ...enome: $ ./fastANI -q [QUERY_GENOME] -r [REFERENCE_GENOME] -o [OUTPUT_FILE] Here QUERY_GENOME and REFERENCE_GENOME are the query genome assemblies in fasta or multi-fasta forma...
1085 days ago
Comment on "REAPR: a universal tool for genome assembly evaluation"
...a perfect map to the reference. Reapr is finicky though, and can’t use libraries with different read lengths, so you’ll have to use assemblies based on the raw data for thi...1321 days ago
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