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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
OPERA : Optimal Paired-End Read Assembler
OPERA (Optimal Paired-End Read Assembler) is a sequence assembly program (http://en.wikipedia.org/wiki/Sequence_asse...r and orient the intermediate contigs/scaffolds assembled in a genome assembly projec...2805 days ago
- Development of cancer is driven by somatic alterations, including numerical and structural chromosomal aberrations....ents. This easy-to-use algorithm, ‘GeneBreak’, is implemented in R (www.cran.r-projec...
2163 days ago
- Background: Transcriptomics, metabolomics, metagenomics, and other various next-generation sequencing (-omics) field...he methods are implemented in R, and are available as part of the shinyheatmap projec...
2763 days ago
- ART is a set of simulation tools to generate synthetic next-generation sequencing reads. ART simulates sequencing re...y. ART was used as a primary tool for the simulation study of the 1000 Genomes Projec...
2750 days ago
Maq: Mapping and Assembly with Quality
Maq stands for Mapping and Assembly with Quality It builds assembly by mapping short reads to reference sequences. Maq is a project hosted by SourceForge.net. The projec...2731 days ago
- maftools - An R package to summarize, analyze and visualize MAF files. Introduction. With advances in Cancer Genomi...g widley accepted and used to store variants detected. The Cancer Genome Atlas Projec...
2644 days ago
- This sockeye software uses the Ensembl database project to import sequence and annotation information from several eukaryotic species. A user can additionally import their ow...
2643 days ago
- This project contains scripts and tutorials on how to assemble individual microbial genomes from metagenomes, as described in: Genome sequences of rare, uncultured bac...
2629 days ago
- This project contains scripts and tutorials on how to assemble individual microbial genomes from metagenomes, as described in: Genome sequences of rare, uncultured bac...
2619 days ago
