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...E. Ukkonen: Accurate selfcorrection of errors in long reads using de Bruijn graphs. Accepted to RECOMB-Seq 2016. Download: LoRMA 0.3 source files README...2193 days ago
Linux command line exercises for NGS data processing
...orial is to introduce students to the frequently used tools for NGS analysis as well as giving experience in writing one-liners. Copy the required files to your current directory, ch...2902 days ago
- FQC is software that facilitates quality control of FASTQ files by carrying out a QC protocol using FastQC,...r navigation among the data sets, utilizes human-readable configuration files to manipulate the pages and t...
1300 days ago
- CrossMap is a program for convenient conversion of genome coordinates (or annotation files) between different assemblies (such as Human hg18 (NCBI36) <>&n...
2827 days ago
- Most variant calling pipelines result in files containing large quantities of vari...ular format for this data. The format of these files and their content is discusse...in the vignette ‘vcf data.’ These files are typically intended to be...
2844 days ago
- ...er, Falquet, Xenarios & Wurm (2011) Visualization and quality assessment of de novo genome assemblies. In brief, our scripts create Cytoscape files to visualize transcript evide...
2839 days ago
BLAST Ring Image Generator (BRIG)
...quence variation in a set of complete genomes, draft genomes or even raw, unassembled sequence data. BRIG also accepts SAM-formatted read-mapping files enabling genomic regions pres...2801 days ago
Nemo – A stochastic, individual-base, genetically explicit simulation platform
...bstantial gain in computing time and system memory when simulating very large grids. Input parameters' arguments may be specified in separate files. This is particularly conveni...2800 days ago
- Watch out: only a few files are counted in coverage statistics. Full documentation on Read the Docs. A set of tools for viral metagenomics. virmet is called with a comman...
2792 days ago
- ...l variant candidates (Supplementary Note 3). In addition to SAM and BAM files with long, short, or paired-end reads, Ribbon can also load coordinate files from whole genome aligners su...
2781 days ago
