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• What is co-assembly
  Hello, biostars! I tried to find the definition of co-assembly but failed. What's the difference ...
• co-assemble Merged reads using Megahit
  Hi everyone, I have 13 RNA seq datasets (demultiplexed fastq files) and I am trying to co-assemb...
• Trinity : How To Co-Assemble Different Samples (Tumor And Healthy)
  Hi, I'm using Trinity to assemble RNAseq data (2X76bp) from an non-model species without availa...
• metagenomic assembly coverage, for multiple samples
  I have multiple samples (interleaved reads), which were co-assembled into one `final.contigs.fa` ...
• Differentially gene expressed analyses of two different samples
  Dear All: I have two different samples. I did assembly, alignment and run Cufflinks for transcri...
• What Figure You Make For Qc Of Whole Exome Sequencing Data
  For analyzing QC of fastq files I know fastQC; It generates lots of statistics; Also, there are a...
• Differences Between Reference Human Genome Assemblies From Different Sources
  I am relatively new to analysis of whole transcriptome RNA sequencing data. I am planning to map ...
• Co-Expression Networks Of Rna-Seq
  Hi everyone! I'm interested in making a co-expression network out of RNA-seq data that I have fo...
• Does It Makes Sense To Assemble All My Rna-Seq Samples As Though They Were One?
  I am doing reference-guided transcript assembly and quantitifaction using Tophat and Cufflinks. C...
• How to make a species co-occurrence network in Cytoscape?
  I have list of microbes enriched in test and control samples along with their relative abundance....
• How to make single bam file from splited bam files
  Hi All, I have bam file splitted into all 23 chromosome(chr1.bam .... chr23.bam) for 1 sample....
• Low value of mapped reads against a metagenomic co-assembly
  Hi, everyone, I have two metagenomic samples, I co-assembled these samples together using both sp...
• assembly of mouse transcriptome from BAM file
  hello, We work with a mouse strain different from the strain that was used in generating the stan...
• Generation of config file with 5 bam files for breakdancer-max
  I have a family of 5 samples. 2 are affected by a disease and 3 unaffected. I want to do a CNV an...
• Best mapping software to generate BAM file
  I have the following tasks that I need to carry out **a.** BAM mapping of Illumina HiSeq 4000 pa...
• Merging Bam Files
  I have two BAM files that have a different sample in read group (@RG) section. I would like the s...
• How to merge multiple bam files into single bam file
  I mapped 30 pair end reads file separately to the genome. now please suggest how to merge these 3...
• Odd Bug?: No transcripts.gtf from Cufflink output
  So I think I have found an odd bug for cufflinks, that I can not find any mention of it in any bl...
• NGS Sample contamination simulation
  I am trying to simulate sample contamination for different level of dilution for NGS samples. Sup...