NxRepair: error correction in de novo assemblies using Nextera Mate Pair Reads
...ntigs. https://nxrepair.readthedocs.io/en/latest/tutorial.html nxrepair aligned_matepairs.bam assemblyfasta.fasta error_locations.csv new_fasta.fasta...1920 days ago
Genome assembly forensics: finding the elusive mis-assembly
...formalizes several mechanisms for detecting mis-assemblies, and describes their implementation in our automated validation pipeline, called amosvalidate. We demonstrate the ap...1918 days ago
RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
...es: Good performance. On a MacBook Pro using Arabidopsis data, pseudochromosome construction takes less than a minute and the whole pipeline with SV calling takes ~2 minutes. In...1837 days ago
RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
...es: Good performance. On a MacBook Pro using Arabidopsis data, pseudochromosome construction takes less than a minute and the whole pipeline with SV calling takes ~2 minutes. In...1645 days ago
1588 days ago
Machine learning training and courses in bioinformatics !
...Bayesian networks) for biological sequence analysis and systems biology. Other machine learning techniques, such as Naive bayes, neural networks and SVMs will only be covered briefl...1579 days ago
Kevler: Reference-free variant discovery in large eukaryotic genomes
...ased method calls single nucleotide variants (SNVs), multinucleotide variants (MNVs), insertion/deletion variants (indels), and structural variants (SVs) simultaneously with a singl...1551 days ago
jtools : more efficient presentation of regression analyses
...lyses. There are a number of functions for other programming and statistical purposes as well. Support for the survey package’s svyglm objects as well as w...1537 days ago
SvABA: Structural variation and indel detection by local assembly
SvABA is a method for detecting structural variants in sequencing data using genome-wide local assembly. Under the hood, SvABA uses a custom implementati...1509 days ago
SynVisio: An Interactive Multiscale Synteny Visualization Tool for McScanX.
...e the source and the target chromosomes that need to be mapped. Users also have option to download the generated visualizations in publication ready SVG or PNG formats.1427 days ago