Results for "reads"

Tags

  • Metagenomics

    Metagenomics

    Metagenomics is the study of genetic material from environmental samples to characterize and identify the millions of microbes from these samples. Example: Gut microbiome, soil sample, water, etc. More information: http://www.nature.com/nrmicro/focus/metagenomics/index.html http://www.ploscom...

    Tags: metagenomics, metatranscriptomics, genomics, reads, 16S rRNA, microbes, microbiology, ecogenomics, ecology, microbiome

    1251 days ago

  • #Mapping #sequencing #reads to a #reference #genome with #Bowtie2: a step-by-step guide https://insidedna.me/tutorials/view/how-to-use-bowtie2-read-mapping

    Tags: Mapping, sequencing, reads, reference, genome, Bowtie2

    522 days ago

  • GraphMap - A highly sensitive and accurate mapper for long, error-prone reads

    GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/ncomms11307.htmlFeatures    Mapping position agnostic to alignment parameters.    Consistently very high sensitivity and precision ...

    Tags: GraphMap, sensitive, accurate, mapper, long, error-prone, reads

    71 days ago

  • #Sickle ( https://github.com/najoshi/sickle ) to #trim #reads using a 20-Phred quality threshold

    Tags: Sickle, trim, reads

    38 days ago

  • #Filter out #reads with #size to discard reads containing many Ns. BBNorm ( https://sourceforge.net/projects/bbmap/ )

    Tags: Filter, reads, size

    38 days ago

  • Assemble short reads http://ged.msu.edu/angus/tutorials/short-read-assembly.html #Tutorial #ABySS #Bacteria #Reads #Assembly #Genomics #NGS

    Tags: Tutorial, ABySS, Bacteria, Reads, Assembly, Genomics, NGS

    1168 days ago

  • Reference-free Prediction of Rearrangement Breakpoint Reads http://bioinformatics.oxfordjournals.org/content/early/2014/05/28/bioinformatics.btu360.short #Reference #Breakpoint #Reads #Rearrangement

    Tags: Reference, Breakpoint, Reads, Rearrangement

    1067 days ago

  • Stacks

    Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform. Stacks was developed to work with restriction enzyme-based data, such as RAD-seq, for the purpose of building genetic maps and conducting population genomics and phylogeogr...

    Tags: Bioinformatics, Computational Biology, Reads, RAD-Seq, NGS

    540 days ago

  • RACA: Reference-Assisted Chromosome Assembly

    Rreference-Assisted Chromosome Assembly (RACA), an algorithm to reliably order and orient sequence scaffolds generated by NGS and assemblers into longer chromosomal fragments using comparative genome information and paired-end reads. http://www.ncbi.nlm.nih.gov/pubmed/23307812 http://bioen-comp...

    Tags: Bioinformatics, NGS, Assembly, Reference, RACA, Reads

    498 days ago

  • Trimmomatic: A flexible read trimming tool for Illumina NGS data

    Paired End: java -jar trimmomatic-0.35.jar PE -phred33 input_forward.fq.gz input_reverse.fq.gz output_forward_paired.fq.gz output_forward_unpaired.fq.gz output_reverse_paired.fq.gz output_reverse_unpaired.fq.gz ILLUMINACLIP:TruSeq3-PE.fa:2:30:10 LEADING:3 TRAILING:3 SLIDINGWINDOW:4:15 MINLEN:36 ...

    Tags: Bioinformatics, Trim, NGS, Illumina, Reads, Trimmomatic

    489 days ago