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...2599 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...1999 days ago
1083 days ago
3000 days ago
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...1911 days ago
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...2677 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...2485 days ago
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...3770 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...3510 days ago
2856 days ago
2538 days ago
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...3613 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...2118 days ago
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...3221 days ago
2118 days ago
2114 days ago
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
2534 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
2530 days ago
1092 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...1328 days ago