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

    1374 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

    645 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

    194 days ago

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

    Tags: Sickle, trim, reads

    161 days ago

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

    Tags: Filter, reads, size

    161 days ago

  • Get the reads in fastq file: awk '{s++}END{print s/4}' file.fastq #reads #count #ngs #fastq

    Tags: reads, count, ngs, fastq

    40 days ago

  • miniasm: very fast OLC-based de novo assembler for noisy long reads

    Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap) as input and outputs an assembly graph in the GFA format. Different from mainstream assemblers, miniasm does not have a consensus step. I...

    Tags: Ultrafast, de novo, assembly, long, noisy, reads, consensus

    21 days ago

  • INC-Seq: accurate single molecule reads using nanopore sequencing

    INC-Seq reads enabled accurate species-level classification, identification of species at 0.1 % abundance and robust quantification of relative abundances, providing a cheap and effective approach for pathogen detection and microbiome profiling on the MinION system.

    Tags: INC-Seq, accurate, single, molecule, reads, nopore, sequencing

    21 days ago

  • COPE: an accurate k-mer-based pair-end reads connection tool to facilitate genome assembly

    An efficient tool called Connecting Overlapped Pair-End (COPE) reads, to connect overlapping pair-end reads using k-mer frequencies. We evaluated our tool on 30× simulated pair-end reads from Arabidopsis thaliana with 1% base error. COPE connected over 99% of reads with 98.8% accuracy, whic...

    Tags: COPE, accurate, k-mer, pair-end, reads, connection, tool, genome, assembly

    12 days ago

  • #Error filtering, pair assembly and error #correction for next-generation sequencing #reads https://academic.oup.com/bioinformatics/article/31/21/3476/194979

    Tags: Error, correction, reads

    12 days ago