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• assembly of genomic DNA reads
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• Using BWA with Illumina data and metagenomic "reference genome"
  Hi, I'd like to try using BWA to align Illumina reads to some contigs a collaborator made from my...
• Can anyone share a workflow of differential gene expression on multiple conditions (>3) and triplicates?
  Hey guys, I just started using Tophat-cufflink on Galaxy today. But the example I found was quit...
• Cuffcompare Or Cuffmerge
  Hi all, I read one paper "Differential gene and transcript expression analysis of RNA-seq experim...
• Cuffdiff-differential gene expression-NOTEST
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• CuffDiff and normalization between runs
  Dear All! I am currently conducting an RNA-Seq experiment in which i have several samples (1 nor...
• Quality Assessment of RNA de novo assemble (trinity) without reference genome
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• Extract Spliced Transcripts From Cuffmerge
  Hi All, I have mapped RNA-Seq reads to an unannotated partial genome assembly and assembled them...
• Merging Of Illumina Paired End Files
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• RIP-SEQ or RNA-SEQ
  Hello, I am new to galaxy as well as RNA seq analysis. Although, I did not perform RNA seq, I am...
• My Female subjects seem to be expressing Y Chromosome Genes
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• Cuffdiff
  Hi, I got confused while trying to perform Cuffdiff for my RNA sequencing analysis. So I have fi...
• Problem with Galaxy-p
  I am using DDBJ pipeline for assembly and annotation of denova transcriptome I am unable to get t...
• Cuffmerge Error: Duplicate Gff Id Encountered
  Hello, I was doing a RNA analyse and I wished to compare the transcription and expression of two ...
• comparisson of RNA-seq FPKMs across samples
  Dear BioStars community, I am trying to "recycle" some RNA-seq data published as supplementary m...
• DEXseq count reads tool obtaining only zero counts for all exons
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• How to get counts for transcripts for all replicates
  Hi BIOSTARS, I have lots of samples that have been aligned to mm10 using RNA STAR. I have succes...