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• Need help with Circos plotting of snps on Galaxy
  Please help me to make a Circos plot of snps against the reference genome on Galaxy. I have a bed...
• Regrading Snps
  I wish to compare SNPs in my mouse sample (SNP file generated from Partek Genomic suite) with SNP...
• Retrieving SNPs coordinates
  Hi,   I want to know if Galaxy offers a tool where I can upload a list of SNPs and get back the...
• 23andme raw data: list of all (around 640K) SNPs tested?
  Hi, I'm studying 23andme raw date (I thank Martin Cech for the help) . I know that the number o...
• Can Tophat Take Snps Into Account?
  Hi, I have been mapping my RNA-seq data to mouse genome from a different mouse strain using TopHa...
• Identifying relevant SNPs from a list
  I have a list of all SNPs in CDS of several thousand genes, and I'm looking for a convenient meth...
• SNPs associated with a gene
  Dear All, which tool is recommended to use for finding out which SNPs associated with which gene...
• How to separate SNPs from other variant types in Galaxy?
  I have a VCF file with all the called variants. I want to keep just the SNPs. This is achievable ...
• extract a SNPs set based on polimorfism in Plink
  Hello, I have a several samples analyzed with 50K beadchip. I want to extract a subset of 100 SNP...
• Need help with "Call SNPS with Freebayes" tool
  Dear Galaxy team how to put reference file in Call snps with freebayes and is it used in RNA seq...
• SNP Profiling Tool
  Is there any software which explores which gene has high number of SNP/INDELs ? That means for ar...
• finding gene locations and known SNPs for a list of genes
  I have a list of genes for which I need to find their respective location on the chromosome and a...
• Tool to catalog SNPs
  Is there a way in which I can catalog SNPs on Galaxy? I am attempting to use my BAM file, along w...
• Plotting Density Of Snps On Chromosomes
  Dear All, I would like to make a graph in which I can compare SNPs of samples for each chromosom...
• Convert .txt in to .bed format to upload into Galaxy
  I am trying to get flanking sequence of a list of SNPs. I have the list of SNPs in a excel which ...
• 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 ...
• Filtering for SNP genotype
  I am a relatively new to galaxy. I have so far succeeded in using galaxy to discovery SNPs using ...
• visualizing a VCF dataset
  Hiiii, i have made a vcf file and has filtered SNPs from there. Now, the problem is i am trying t...
• Problem with Galaxy 101 Tutorial.
  I'm encountering an error at step 2.2, sorting exons by SNP count, as described at https://usegal...
• Snp Analysis In Galaxy
  I posted this question in Dev- list so re-posting to correct list with some additional informatio...
• How To Extract Geneid From Pileup File?
  Dear galaxy-users, I am working on a project to identify and genotype SNPs in targeted genes. ...
• SNP Genomic Interval Intersect Error
  Hi all, Please indulge a question from new user. I have a .bed of SNPs with annotations, and wan...
• SNP tool (Amino acid change) throwing error
  Hi I have discovered some 240,000 SNPs and am using the **"amino-acid changes caused by a set of...