Results for "Genome"
Tags
GenomeView: genome browser and annotation editor
GenomeView is a genome browser and annotation editor that displays reference sequence, annotation, multiple alignments, short read alignments and graphs. Most major data formats are supported. Local and internet files can be loaded.This project has moved to GitHub: https://github.com/GenomeV...Tags: GenomeView, genome, browser, annotation, editor
1942 days ago
CANU genome assembly parameters !
Choose the appropriate parameters to run Canu and run it. The assembly will take about an hour. You can use two cores (parameter -maxThreads=2) and you would like to disable cluster option, since we compute on a single Amazon server set off the option to compute on cluster useGrid=false...Tags: CANU, genome, assembly, parameters, NGS, LongReads, OLC
1937 days ago
LTR_Finder: an efficient program for finding full-length LTR retrotranspsons in genome sequences.
LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in genome sequences. The Program first constructs all exact match pairs by a suffix-array based algorithm and extends them to long highly similar pairs. Then Smith-Waterman algorithm is used to adjust the ends of LTR ...Tags: LTR_Finder, efficient, program, find, full-length, LTR, retrotranspsons, genome, sequences
1931 days ago
- LTR_retriever is a command line program (in Perl) for accurate identification of LTR retrotransposons (LTR-RTs) from outputs of LTRharvest, LTR_FINDER, and/or MGEScan-LTR and generating non-redundant LTR-RT library for genome annotations. By default, the program will generate whole-genome LTR-RT...
Tags: LTR_retriever, accurately, identifies, annotates, LTR, retrotransposons, LAI, evaluates, continuity, genome, assemblies.
1931 days ago
List of tools frequently used while genome assembly
List of tools frequently used while genome assembly: I have used the following assemblers Spades (v. 3.10.1) CANU (v. 1.6) Unicycler (v. v0.4.1) Miniasm (v. 0.2-r137-dirty) I have used the following mappers minimap2 (v. 2.0rc1-r232) minimap (v. 0.2...Tags: List, tools, frequently, genome, assembly
1922 days ago
Evaluation of genome assembly software based on long reads
TGS technologies have been used to produce highly accurate de novo assemblies of hundreds of microbial genomes and highly contiguous reconstructions of many dozens of plant and animal genomes, enabling new insights into evolution and sequence diversity. They have also been applied to resequencing...Tags: Evaluation, genome, assembly, software, long, reads
1912 days ago
