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• co-assembly bam file generation for metagenomic binning
  Will it make a difference to generate the BAM files individually for each sample in a co-assembly...
• co-assemble Merged reads using Megahit
  Hi everyone, I have 13 RNA seq datasets (demultiplexed fastq files) and I am trying to co-assemb...
• 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...
• Where does my RNASeq contamination fits on the Tree of Life?
  I have **RNASeq of algal cultures** so my samples are not really axenic. Instead, the presence of...
• Sequential contig mapping
  Hi, I am using short read data to map against assemblies as part of a bulk segregant analysis. ...
• Contamination in assembly
  Hi, I am doing a de novo assembly and I have contamination with Saccharomyces. I cleaned the raw...
• Illumina reads mapped back onto contigs have gaps
  I assembled a genome using pac bio reads with the Flye Assembler. I then mapped my cleaned up ill...
• Short contigs after megahit assembly of metagenomic samples
  Hi everyone, I am working with metagenomic samples and I co-assembled the two metagenomic sample...
• Comparing contigs results from two different assembler
  I have done genome assembly on a bacteria sample using SPAdes and Velvet. I have a contigs file f...
• MetaBAT grouping contigs with very different abundances
  Hello friends I am doing the analysis of three marine metagenomic samples. I am interested in re...
• generation of contigs from sanger sequencing
  Hi, I have a lot of sanger sequences to assemble into the contigs. To be more precise, I used 50...
• Assembling a Transcriptome using Trinity with multiple Illumina Fastq files
  Hey y'all, I am an undergraduate biology major and have just started exploring the field of bio...
• Cleaning up trinity assemblies
  Hi, I have performed de novo assemblies on mRNA using trinity with PE illumina data (125bp PE). ...
• Bfast Match Argument : Regroup Multiple Reads File For Final Alignment
  I would like to align reads from multiple samples on the same contigs from a de novo assembly. I ...
• RNA-seq analysis: How to generate a master gene expression matrix to do co-expression cross all conditions of my samples
  I am trying to perform gene co-expression analysis to identify the clusters of genes that co-expr...
• Assemble Amplicons from several samples
  Dear all, I'm trying to analyze amplicon NGS data from several samples, and not quite sure what ...
• Refining My Transcriptome Assembly
  Hi, I'm doing some transcriptomics on a non-model (an earthworm) and am having issues with my as...
• Calculating FPKM for large number of samples mapped to co-assembly
  Hi I am very new to this line of analyses so please be kind and I am sorry if I miss any inform...
• How to generate rainfall plots when using multiple different species assemblies
  I have single nucleotide variant calls in .txt format from individuals from a variety of species....