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• C. elegans CloudMap Hawaiian mapping with a transgene
  Hello, I'm using the CloudMap Hawaiian C. elegans mapping workflow and everything seems to have ...
• Naive Variant Caller
  I am using RNA-seq data for two different species and their hybrids. I want to find all positions...
• using mPileup to examine allelic imbalance in hybrids
  Hi, I have some RNA-seq data for two different species and their hybrids. I want to look at the ...
• ERROR MESSAGE: Your input file has a malformed header: VCFv4.2 is not a supported version - Eval Variant Tool
  Hi, I am getting this error when running eval variant tool from GATK ver 2.8 in galaxy. ERROR...
• Is there a command line example/instruction of the CloudMap workflow?
  Hello, this question was asked on https://www.biostars.org/p/158324/ initially, following a reco...
• Processing Gff3 File Of Variants
  Hello all, I have a GFF3 file of variants from nextgen sequencing and want to find non-synonymou...
• Filtering Variants using Snpsift filter and SnpEff
  Hi, I have a bunch of variants in .VCF file which I got through the unified genotyper tool. Now ...
• Can't get link from "Export to file"
  Hi, I'm trying to use "Export to file" to copy a history from one Galaxy instance to another. But...
• cloudmap error on galaxy
  Hello Everyone, I am running cloudmap on Galaxy. Here it reported this problem. ===============...
• Problem with RealignerTargetCreator in the CloudMap workflow
  My lab has previously used the CloudMap pipeline to identify the location of mutations from in C....
• Filtering for the frequency of ALT alleles
  Hi, When running CloudMap unmapped mutant workflow, I get a SnpEff file with Homozygous or heter...
• RNAseq exon count
  Hej, I have an RNAseq dataset (single end) from a mouse model heterozygous for a trapped-gene. Th...
• File Format On Biomart Imported Data
  Hello, When importing BioMart data from galaxy, the format is always "text". In the "Results" pa...
• Using Galaxy to sort SNPs according to their allele frequency
  Hi, I have a list of SNPs uploaded to the Galaxy platform ([https://usegalaxy.org/][1]) and I'm ...
• Export To File
  Hi list, Is there a currently a known problem with the "export to file" function? I'm trying to ...
• How to export the SNPs between whole genome alignments using the command line?
  I am using Mauve to align two the whole genome sequences, one of the sequence is in the form of c...