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OmicsBox Genome Analysis Module
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| SKU | genome-analysis |
|---|---|
| Status | Enabled |
Quality Control And Assessment
Use FastQC and Trimmomatic to perform the quality control of your samples, to filter reads and to remove low quality bases.
De-Novo Assembly
The assembly feature allows to reconstruct whole genome sequences without a reference genome or specific hardware requirements. Assemble sequencing data from both, short and long read technologies with 3 different algorithms: ABySS, SPAdes and Flye.
Alignment and Polishing
Align short sequencing reads against large sequences with BWA, and correct draft assemblies from long reads with Pilon.
Repeat Masking and Gene Finding
Mask repeats of genome assemblies with RepeatMasker to improve downstream gene predictions.
Perform prokaryotic (Glimmer) and eukaryotic (Augustus) gene predictions to characterize genome structure.
Genome Browser
Visualize your annotations in form of tracks to combine the genome sequences (.fasta) with alignments (.bam), intron-exon structure (.gff) and variant data (.vcf).
Statistics
Exploratory Analysis
The rich user interface allows to process large genome annotations with ease. Gene annotations, in General Feature Format style, can be filtered, sorted and combined with other result sets. Select the genes to display directly from the table.