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  2. DESeq2 - Wikipedia

    en.wikipedia.org/wiki/DESeq2

    DESeq2 is a software package in the field of bioinformatics and computational biology for the statistical programming language R.It is primarily employed for the analysis of high-throughput RNA sequencing (RNA-seq) data to identify differentially expressed genes between different experimental conditions.

  3. List of RNA-Seq bioinformatics tools - Wikipedia

    en.wikipedia.org/wiki/List_of_RNA-Seq...

    PathwaySeq [154] Pathway analysis for RNA-Seq data using a score-based approach. petal Co-expression network modelling in R. ToPASeq: [155] an R package for topology-based pathway analysis of microarray and RNA-Seq data. RNA-Enrich A cut-off free functional enrichment testing method for RNA-seq with improved detection power.

  4. File:RNA-Seq workflow-5.pdf - Wikipedia

    en.wikipedia.org/wiki/File:RNA-Seq_workflow-5.pdf

    The following other wikis use this file: Usage on ar.wikipedia.org تتابع الحمض النووي الريبي RNA; Usage on en.wikiversity.org WikiJournal of Science/A broad introduction to RNA-Seq; Usage on gl.wikipedia.org RNA-Seq; Usage on he.wikipedia.org ריצוף ברמת התא הבודד; Usage on ja.wikipedia.org 利用者:Iaacc ...

  5. File:Mirna seq data analysis.pdf - Wikipedia

    en.wikipedia.org/wiki/File:Mirna_seq_data...

    Permission is granted to copy, distribute and/or modify this document under the terms of the GNU Free Documentation License, Version 1.2 or any later version published by the Free Software Foundation; with no Invariant Sections, no Front-Cover Texts, and no Back-Cover Texts.

  6. UGENE - Wikipedia

    en.wikipedia.org/wiki/UGENE

    Visualize next generation sequencing data (BAM files) using UGENE Assembly Browser; Variant calling with SAMtools [8] RNA-Seq data analysis with Tuxedo pipeline (TopHat, [9] Cufflinks, [10] etc.) ChIP-seq data analysis with Cistrome pipeline (MACS, [11] CEAS, [12] etc.) Raw NGS data processing; HMMER 2 and 3 packages integration; Chromatogram ...

  7. Peak calling - Wikipedia

    en.wikipedia.org/wiki/Peak_calling

    Wilbanks and colleagues [3] is a survey of the ChIP-seq peak callers, and Bailey et al. [4] is a description of practical guidelines for peak calling in ChIP-seq data. Peak calling may be conducted on transcriptome/exome as well to RNA epigenome sequencing data from MeRIPseq [ 5 ] or m6Aseq [ 6 ] for detection of post-transcriptional RNA ...

  8. File:Single cell RNA-Seq workflow.pdf - Wikipedia

    en.wikipedia.org/wiki/File:Single_cell_RNA-Seq...

    You are free: to share – to copy, distribute and transmit the work; to remix – to adapt the work; Under the following conditions: attribution – You must give appropriate credit, provide a link to the license, and indicate if changes were made.

  9. Sequence analysis - Wikipedia

    en.wikipedia.org/wiki/Sequence_analysis

    It is the first step in sequence analysis to limit wrong conclusions due to poor quality data. The tools used at this stage depend on the sequencing platform. For instance, FastQC checks the quality of short reads (including RNA sequences), Nanoplot or PycoQC are used for long read sequences (e.g. Nanopore sequence reads), and MultiQC ...