1150 days ago
1143 days ago
List of gene ontology software and tools
...providing a rich graphical user interface. It is a simple to use tool, specialized for biologists who wish to analyze spectral counting data from shotgun proteomics. http://pcarvalho...3713 days ago
2917 days ago
2620 days ago
Genome Assembly Tools and Software - PART2 !!
...DISCOVAR 51750 – Genome Shotgun Assembler and Variant CallerD...OS 3.1.0 – Whole Genome Shotgun AssemblerAMOS (AModular,...rge genomes from whole genome shotgun reads, or a combination of wh...equences which can be used as shotgun reads. SLiQ – Simple l...2689 days ago
Useful Publications and Websites for Deep Sequencing Data Analysis
...54, 2011 Full Text High-throughput genotyping by whole-genome resequencing. Huang et al., Genome Res 19(6):1068-76, 2009. Full Text Multiplexed shotgun genotyping for rapid and effi...3783 days ago
Commercial and public next-gen-seq (NGS) software
...t the Canada's Michael Smith Genome Sciences Centre. C++ as source. ALLPATHS - ALLPATHS: De novo assembly of whole-genome shotgun microreads. ALLPATHS is a whole genome shotgun assembler that can generate h...3522 days ago
3249 days ago
Grinder / Biogrinder - A versatile omics shotgun and amplicon sequencing read simulator
Grinder is a versatile program to create random shotgun and amplicon sequence libraries based on DNA, RNA or proteic reference sequences provided in a FASTA file. Grinder can produce genomic, metagenomic, transcriptomic, metatranscriptomic, proteomic, metaproteomic shotgun and amplicon datasets...Tags: Grinder, Biogrinder, Versatile, Omics, Shotgun, Amplicon, Sequencing, Read, simulator
2541 days ago
ALPACA: A hybrid strategy for assembly of genomic DNA shotgun sequencing reads.
ALPACA requires Celera Assembler 8.3 or later. It is recommended to build Celera Assembler from source. (Why? The pre-built binaries CA_8.3rc1 and CA8.3rc2 will work for any large data set. Detail paper at https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-017-3927-8Tags: ALPACA, hybrid, strategy, assembly, genomic, DNA, shotgun, sequencing, reads
2200 days ago