Results for "TE"
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DIAMOND is a sequence aligner for protein and translated DNA searches and functions as a drop-in replacement for the NCBI BLAST software tools. It is suitable for protein-protein search as well as D...2624 days ago
Enrichr: a comprehensive gene set enrichment analysis
...ethod for analyzing gene sets generated by genome-wide experiments. Here we present a significant update to one of the tools in this d...hr currently contains 180 184 annotated gene sets from 102 gene set...visualization of the results as clustergrams. Overall, Enrichr is a...2624 days ago
- ...sp;Tophat, STAR or HISAT for RNA-Seq data. Mappers differ in which options they can take in, how fast and how accurate they are. Bowtie is faster than BWA, but looses some se...
2619 days ago
- FASTQ format is a text-based format for storing both a biolo...orresponding quality scores. Both the sequence letter and quality score are each encoded with a single ASCII character for brevity. It was origina...
2618 days ago
- A tetra-nucleotide is a fragment of DNA sequence with...;et al. (2003) showed that the frequency of tetra-nucleotides in bacterial genomes contain useful, a...r, TNA can be useful for phylogenetic characterization when whole genome or...
2617 days ago
- ...data. It is unique in offering the possibility to manually control the scaffolding process. By using the distance information of paired-end and/or matepair data, SSPACE is able to a...
2616 days ago
CLA: Contig-Layout-Authenticator
To improve upon the shortcomings associated with the construction of dra...CLA pipeline can scaffold reference-sorted contigs based on paired reads, resulting in better assembled genomes. Moreover,...titive contigs. The tool has been validated and compared favorably with...2616 days ago
- ...source genome assembly and secondary scaffolding tools to generate high quality assemblies of bacterial sequence data. The bacter...that there are forward and reverse reads, which we will designate as Sample_R1.fastq and Sample...
2616 days ago
Barrnap: Bacterial ribosomal RNA predictor
...f ribosomal RNA genes in genomes. It supports bacteria (5S,23S,16S), archaea (5S,...5.8S,23S,16S), mitochondria (12S,16S) and eukaryotes (5S,5.8S,28S,18S). It takes...nux and Mac OS X are included and will be auto-detected. Multithreading is suppor...2609 days ago
A Post-assembly genome-improvement toolkit (PAGIT) to obtain annotated genomes from contigs
...dresses the need for software to generate high quality draft genomes. I...oped: ABACAS, that is able to contiguate contigs from a de novo assembly against a closely related reference. IMAGE, an iterat...in the consensus sequence to be corrected by iteratively mapping reads...2609 days ago
