Software and Tools to detect structure variation with long reads !!
...alling user interface with built-in cluster compute support Small indel calling (2-49 bp) Improved inversion calling (screenInversions) Quality metric for SV calls based on number...2616 days ago
Protocol for De novo Genome Assembly using Illumina Reads
...tigs. Any mis-assemblies can occur. Mis-assembly checking and assembly metric tools:QUAST - Quality assessm...ent tool for genome assembly http://bioinf.spbau.ru/quastMauve assembly metrics - http://code.google.com/p/n...1213 days ago
QuasiModo - Quasispecies Metric Determination on Omics
This repository contains the scripts and pipeline that reproduces the results of the HCMV benchmarking study. In this study we evaluated genome assemblers and variant c...1052 days ago
auN: a new metric to measure assembly contiguity
Given a de novo assembly, we often measure the “average” contig length by N50. N50 is neither the real average nor median. It is the length of the...651 days ago
Genome Assembly Tools and Software - PART2 !!
...respect to the assembly and a statistical model which can be used as a metric for evaluating assemblies. F...dash; Assembly Analysis FrameworkGAEMR (Genome Assembly Evaluation Metrics and Reportin) is a complete...2694 days ago
Awesome perl frameworks, libraries and software - PART 2
.../perl5-net-statsd - Net::Statsd is a Perl client for Etsy's statsd metric collection daemon chromatic/...n-mogilefs - Perlbal Plugin to serve data from MogileFS UUPharmacometrics/PsN - Perl-Speaks-NONME...2503 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...Description: Combined Annotation Dependent Depletion; tool for scoring SNV deletions/insertions; “integrates multiple annotations into one metric”; Score strongly correl...2917 days ago
2877 days ago
QuasiModo - Quasispecies Metric Determination on Omics
This repository contains the scripts and pipeline that reproduces the results of the HCMV benchmarking study. In this study we evaluated genome assemblers and variant callers on 10 in vitro generated, mixed strain HCMV sequence samples, each consisting of two lab strains in different abundance ra...Tags: QuasiModo, Quasispecies, Metric, Determination, Omics, Virus, Genome, Variant, Assembly, SNP
1052 days ago
auN: a new metric to measure assembly contiguity
Given a de novo assembly, we often measure the “average” contig length by N50. N50 is neither the real average nor median. It is the length of the contig such that this and longer contigs cover at least 50% of the assembly. A longer N50 indicates better contiguity. We can si...Tags: auN, new, metric, measure, assembly, contiguity
651 days ago
Comment on "Which are the best statistical programming languages to study for a bioinformatician?"
...html In stastistical language war, a/c to this metric, R wins TYPE OF STAT...A SPSS Nonparametric Tests Yes &n... Yes Nonparametric Smoothing Methods  ...3560 days ago