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• How To Get A List Of Coding Exons In Which Each Exon Is Represented Once.
  Hey everyone, I am a new galaxy user. I am trying to upload coding exons of specific region from ...
• How to classify the variants into different groups?
  Hello, This is my first time using galaxy. I ran Free Bayes to detect the variants of a data set ...
• Suggestions for variant callers/ problem with BCF view
  Samtools mpileup only outputs genotypes fields for samples when a BCF output is selected. The BCF...
• Hello help for annovar..
  I need some help.. I have this . Using your resulting VCF determine 1) the number of single nucle...
• Exon number ucsc or other
  Hello, I am wondering how can i find exon number using regions start-end for 100 exons at the...
• How do I determine the correct filtering threshold in VCFfilter after running FreeBayes
  I would like to perform a VCFfilter on my FreeBayes data but I'm not sure how to choose the corre...
• help with the acount of the total number of variants fron vcf file
  i have a vcf file and now how can i proceed to have the number ofsingle nucleotide variants, the ...
• Variant calling with 5x coverage, human genome
  I am new to analysing raw sequencing data - apologies in advance if I seem not to understand what...
• getting number of SNPs, insertion/deletion from VCF with VCFfilter
  Hello, I am trying to extract from a VCF file the number of SNPs: Single nucleotide variants , I...
• Constitutive Exon Workflow?
  Hi folks, I'm trying to find over the entire human genome, for each gene, which exons are the mos...
• Need help with "Stitch MAF blocks" tool
  The "stitch-maf-blocks" report that I get 763,251 sequences. After I download the result, the num...
• finding the number and positions of exons and introns
  hi I have a CDS sequence and I need to know about the number and positions of exons and introns C...
• Finding Constitutive Exons Using Expression Data
  Hi, I'm trying to find over the entire human genome, for each gene, which exons are the most cons...
• Variant analysis help
  Hello, I am trying to identify variants using data from a BAM file generated from an RNA-Seq exp...
• Bowtie2 Select Reference Genome; eliminating false positive variants
  Three questions: 1) When specifying a reference genome, what are the advantages and disadvantages...
• Problem with Galaxy 101 Tutorial.
  I'm encountering an error at step 2.2, sorting exons by SNP count, as described at https://usegal...
• Synonymous And Non-Synonymous Snps
  Hi, I have been taking a look at Galaxy and playing with it a bit. I have also watched several o...
• Looking at copy number variant data that has already been called
  Dear Biostars community, I have a dataset of patients: - cohort 1 are patients with a specific...
• How to run a multiple hypothesis test on genomic data in galaxy
  Hello! I am trying to answer some very broad questions with some chromosomal genomic data. So fa...
• Commandline Bowtie2 and variant call help.
  Hello there! When you run bowtie2 to align the reads to the genome, some stats about the file ar...
• GFF Error: duplicate/invalid 'transcript'
  Hi There, I am new to the field of bioinformatics and faced some difficulty while using galaxy fo...
• How to join to data-sets correctly?
  Hi, I'm having difficulty in joining to data-sets to find the number of repeats in coding exons i...