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We advise to run first the TEdenovo pipeline but it is not compulsory. We suppose you begin by running the TEannot pipeline on the example provided in the directory "db/" rather than directly on your own genomic sequences. Thus, from now on, the project name is "DmelChr4".2826 days ago
- ...nd and/or mate-pairs reads gap closing Redundans is: fast & lightweight, multi-core support and memory-optimised, so it can be run even on the laptop for small-...
2812 days ago
- ...a favorable solution.Fermi is designed to be used on a multi-core Linux machine with large shared memory. The easiest way to run fermi is to use the run-fermi.pl script. It gene...
2804 days ago
- ...nds so far are fetch download genomes update update viral/bacterial database index index genomes wolfpack analyze a Miseq run covplot plot coverage f...
2773 days ago
- ...lated protein sequence. HybPiper also includes post-processing scripts, run after the main pipeline, to a...cing depth. For more information, please see our wiki. HybPiper is run separately for each sample (s...
2748 days ago
Maq: Mapping and Assembly with Quality
...tp://sourceforge.net/projects/maq/. Maq is previously known as mapass2. Run Maq Now Follow these steps t....dat is contained in maq-data. View the alignment: cd maqdemo/easyrun; maqindex -i -c consensus.cn...2730 days ago
Standardized velvet assembly report
...ng BLAST, add blastall and formatdb. Edit permute.sh to your liking, paying particular attention to the kmer, cvCut, expCov, and other flags To Run: perl fastaAllSize myseque...2713 days ago
- The objective of this activity is to help you understand how to run Velvet in general, how to accurately estimate the insert size of a paired-end library through the use o...
2713 days ago
- PEAR is an ultrafast, memory-efficient and highly accurate pair-end read merger. It is fully parallelized and can run with as low as just a few kilobytes of memory. PEAR evalu...
2703 days ago
MeGAMerge: A tool to merge assembled contigs, long reads from metagenomic sequencing runs
...contigs, long reads from metagenomic sequencing runs) Description MeGAMerge is...p Length, Identity, etc) are user-declarable at runtime. It is written to run on...to $binpath in the tool: Newbler (specifically runAssembly)Minimus2 (part of AMO...2703 days ago
