Comment on "Running Trinity on RNA-seq !"
Once your assembly is complete, there are several analyses you will likely want to pursue to explore aspects of...he transcripts using Trinotate. If your organism has an assembled genome, consider u...2138 days ago
Comment on "SPAdes hybrid genome assembly"
use SPAdes to assemble the data. SPAdes is a swiss-army knife of genome assembly tools, and by default includes read correction. This takes up lots of RAM, so we are goi...2189 days ago
2190 days ago
Comment on "Run miniasm assembler on nanopore reads !"
I followed this to assemble the genome using ONT (nanopore reads) Minimap and miniasm are ultrafast tools for (i) mapping and (ii) assembly. Designed for long, noisy rea...2190 days ago
Comment on "List of genome announcement, notes and reporting journals"
Genomics data also accept draft genome assembly papers https://www.sciencedirect.com/journal/genomics-data2197 days ago
Comment on "GraphMap - A highly sensitive and accurate mapper for long, error-prone reads"
...Engineering and Computing (3) Genome Institute of Singapore, A*STA...put SAM alignments will be in genome space (not transcriptome). -K...les. gfa - Graphical Fragment Assembly format. sam - Sequence Alig...erence sequence is a circular genome. [false] -F, --ambiguity FLT Al...2307 days ago
2588 days ago
Comment on "SGA: String Graph Assembler"
Try this hierarchical genome assembly (HGA) assembler https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4779561/2720 days ago
Comment on "RACA: Reference-Assisted Chromosome Assembly"
...omosomer – a reference-based genome arrangement tool, which rapidly builds chromosomes from genome contigs or scaffolds using their alignments to a reference genome of a closely related species....common operations accompanying the genome assembly process. More at http:/...2786 days ago
Comment on "Next Generation Sequencing (NGS) Tutorials"
A field guide to whole-genome sequencing, assembly and annotation http://onlinelibrary.wiley.com/doi/10.1111/eva.12178/full2890 days ago