Similar posts • Search »

• Galaxy app to retrieve selected raw reads
  There are many previous threads regarding how to retrieve selected raw reads from fastq files off...
• Fastq To Fastqsanger Using Groomer Question
  Hello! I am fairly new to using Galaxy and have a question about the FASTQ Groom...
• How do i find out the minimum and maximum read lengths pre and post quality trimming?
  HI Im very new to galaxy and just using it for one assignment. How do i find out the minimum and...
• problem in transcriptome assembly
  I successfully assembled my raw reads to generate assembly. But when I concatenate the reads, the...
• Raw Count Of Genes
  Dear all, I am a Phd student working on chicken genomics, with limited experience in the bio-inf...
• RNA-Seq raw count data analysis using GALAXY
  Hi, I have downloaded the raw_readcounts files (.txt files) from an RNA-Seq experiment using GSE ...
• MultiQC refusing to select multiple FastQC files
  I followed the directions from the FastQ tutorial for my 32 files. The run produced an output of ...
• Do I trim paired end sets first or merge and then trim?
  Hi there, I have a quick question - I have raw 10Gb -sized datasets for my samples. For each one...
• DiffBind on Galaxy
  Hi, I am trying to perform Diff Bind on Galaxy using output from MACS and bam files for Read and...
• DESeq2 p-value histogram
  Hi there, Working on an assignment on RNA-seq DE analysis and I've got a couple of questions... ...
• How to get raw reads from bam file
  Hi, I can't figure out how to get raw reads counts from a bam file. I have 3 different experimen...
• RNAseq data to be processed in two ways: (i) mapping to de novo Trinity-based transcriptome and (ii) mapping a relatively new genome
  Hello all, I am new to RNAseq data and learning this process step by step, so I have a few quest...
• Extracting Raw Count Data From Mapping
  Hi, I would like to extract raw counts from tophat output. Does anyone know a way to do this in...
• I am slightly confused about the input requirements for the differential expression tool - last step of Trinity
  Hello all, I have a pressing question... To start with, I have read the Trinity methods paper ...
• Question from student
  Hi all, Does anyone know if it's possible to see the total number of raw reads, the number of re...
• Re: Reducing Overall Data Footprint
  Hi Bryn, Removing unneeded data is the best solution if using Main. One example would be saving ...
• Bowtie Raw Input
  Hi There Im trying to map RNA-seq data to a reference genome in Galaxy (Main instance) using bot...
• What is the difference between a label and name?
  I am very new to Galaxy and am learning about workflows with the final aim of making a workflow f...
• Cuffdiff Errors: "Loading reference annotation" and "Inspecting maps and determining fragment length distributions". whats that mean?
  Hello everybody, I'm very new in RNA seq analysis I have run cuffdiff on 3 condition dataset coll...
• Alignment Question
  Hello, I was wondering if Galaxy can align Solexa reads to a reference sequence. If not, can I u...