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Live Webinar on RNA-Seq Data Analysis on 9 Nov 2016
By Strand 3427 days agoLive Webinar on RNA-Seq Data Analysis Abstract: Strand NGS supports an extensive workflow for the analysis and visualization of RNA-Seq data. The workflow includes Transcriptome / Genome alignment, Differential expression analysis with Statistical...kallisto: a program for quantifying abundances of transcripts from bulk and single-cell RNA-Seq data
By Jit 2616 days ago Comments (1)pachterlab.github.io - kallisto is a program for quantifying abundances of transcripts from bulk and single-cell RNA-Seq data, or more generally of target sequences using high-throughput sequencing reads. It is based on the novel idea of pseudoalignment for...Understanding RNA-Seq Normalization Methods: TPM vs. FPKM vs. CPM
By Neel 452 days agoChoosing the right normalization method depends on the specific objectives of your RNA-Seq analysis. TPM’s proportionality and robustness make it the preferred choice for most applications, while CPM serves well for differential expression...dupRadar package
By Jit 2953 days agobioconductor.org - The dupRadar package gives an insight into the duplication problem by graphically relating the gene expression level and the duplication rate present on it. Thus, failed experiments can be easily identified at a glanceMarine bioinformatician ;)
By Rahul Nayak 4091 days ago Comments (1)A marine bioinformatician at work. Sorry jealous biotechnologist, this is how we work.alluvial diagram
By Jit 2359 days agocran.r-project.org - Alluvial diagram is a variant of a Parallel Coordinates Plot (PCP) but for categorical variables. Variables are assigned to vertical axes that are parallel. Values are represented with blocks on each axis. Observations are represented...Surrogate Variable Analysis (SVA)
By Jit 4146 days agoThe sva package contains functions for removing batch effects and other unwanted variation in high-throughput experiment.Rcorrector: efficient and accurate error correction for Illumina RNA-seq reads
By BioStar 2223 days agogithub.com - Rcorrector has an accuracy higher than or comparable to existing methods, including the only other method (SEECER) designed for RNA-seq reads, and is more time and memory efficient. With a 5 GB memory footprint for 100 million reads, it can be run...New RNA Seq tool
By Rahul Agarwal 4334 days ago Comments (4)www.genengnews.com - "By removing the time-consuming step of read mapping, the authors reported, Sailfish able to provide quantification estimates 20–30 times faster than current methods without loss of accuracy." Tool...
