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• assemblers choose high k-mers: what does that mean?
  I am co-assembling metagenomic PE reads. `megahit`and `metaSPAdes`consistently choose the final a...
• RNA-seq from Co-culture, can I filter out the reads that map to one species and assemble what is left?
  Hi, I have recently performed RNA-seq on two bacterial species both on their own and in co-cultu...
• Differences between co-expression and co-regulation
  Hi biostars community, What's the difference between co-expression and co-regulation, is there a...
• co-assemble Merged reads using Megahit
  Hi everyone, I have 13 RNA seq datasets (demultiplexed fastq files) and I am trying to co-assemb...
• Pipeline for a meta-assembly of De-novo Transcriptome
  Hi all, I'm about to analyze a De Novo transcriptome assembly and I have more than 500GB from di...
• Co-assembling a low-coverage genome from multiple libraries
  Hi everyone! I have the task to co-assemble and bin (and then annotate / analyse function) a low...
• 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...
• Co-expression analysis for genes coexpressed with gene X, genes X and Y, etc.
  Hi, I have been asked to perform a co-expression analysis to look for genes that are co-expressed...
• Short contigs after megahit assembly of metagenomic samples
  Hi everyone, I am working with metagenomic samples and I co-assembled the two metagenomic sample...
• Co-segregation of genomic structures
  I want to know what would be the key computational approach to exclude any co-segregation of geno...
• Optimizing De Novo Transcriptome assemblies for non model organisms
  Hi all, I have to analyze 24 transcriptomes (TRM) in order to compare gene expression in differe...
• Quality Of Assembly Based On Ion Torrent Data (Microbial Genome)
  Hi there. New to Bioinformatics ! Results are as follows: Ion-Torrent Data for a 5 Mbp microbial...
• Simultaneous multiple read recruitment with BBMap?
  Hey there, I have a co-assembly (assembled from 3 sets of PE reads) and would like to recruit al...
• String Database: What Do "Conserved Neighborhood View" And "Co-Occurrence" Mean?
  i can't understand the terms "Conserved Neighborhood View" & "Co-occurrence". what actually t...
• Mm9 Vs Mm10 [Why Is The Information Less In New Genome Build]
  Hi folks, According to my understanding, when a new genome is annotated, it should contain new i...
• RNA-SEQ data processing
  Hello All, I am looking into co-expression analysis of genes at different developmental st...
• De Novo Transcriptome Assembly Options For Mixed Platforms (454, Sanger, Solexa)
  Looking for some information on assemblers that can work with mixed data for de novo assembly of ...
• RNASeq reads from two bacterial species
  Dear All I am trying to analyze co-transcriptome data from two enteric pathogens. These are new...