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  Dear community, I am now in the process of aligning RNA-seq reads with Bowtie2. My input is a li...
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• Aligning Against Multiple Reference Sequences
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• Unable to convert FASTAQ file into NCBI standered FASTA file format
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• Problem running Clustal 2.1 Multiple Sequences Alignment - an instance of 'std::bad_alloc'
  Dear All, I've been trying to analyze reads from a short transcript. The data I have was obtaine...
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  Hello I have done both a hisat2 and tophat alignment, both yielding BAM files which I later con...
• Question
  I WANT TO ALIGNMENT MILLIONS OF SEQUENCES FROM A sRNA LIBRARY WITH A SMALL GENOME (2600 BASES). ...
• Latest Genome Builds?
  Hi, It doesn't appear your database has the latest genome builds for human (hg18) and mouse (mm8...
• analysis of tophat results
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• Sequence Duplication level
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• TopHat align summary
  Hello, I am using galaxy to analyze RNA seq of 100bp sing end data, sequenced with Illumina 2500...
• tophat result interpretation
  i have downloaded an SRA sequence from ebi. after doing QC and grooming i have run tophat. i have...
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  Hiii.... i want to do multiple sequence alignment to get format compatible for constructing a phy...
• How many should multiple alignment of tophat-out in Human RNA-seqs?
  Hi I'm checking my tophat output data and I would like to know the rate of this multiple alignme...
• Lastz On Galaxy
  Dear galaxy team, I would like to know whether it is possible to perform LastZ (multiple sequence...
• Stitch MAF blocks - can gaps in reference be kept?
  Dear all, I am using the galaxy tool "Stitch MAF blocks" to extract multiple alignments (using t...
• Stitching MAF blocks for use with phyloCSF
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• Is it possible to group many MAF files?
  Hi, I have an interval file with ~100 sequences from hg38 that I am trying to extract multiple a...