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• BAM files on IGV look empty
  Thanks for your previous help. I use these demonstration files https://zenodo.org/record/582600#....
• Ftp Server
  Dear All, it states that to upload fastaQ files bigger then 2Gb to use the Galaxy FTP server, bu...
• Where to get SNPs and Indels?
  I downloaded some files from Broad Institute but Realigner Target Creator won't work with these f...
• Unable to view aligned reads in IGB after loading BAM file
  Hello everyone, I downloaded an SRA file from a GEO accession and converted it to a BAM file usi...
• Http error 500 when downloading bam dataset
  When I click 'download dataset' for my bam files, I get an http 500 error. This is specific to ba...
• Cannot download a bam dataset list
  Hi! I am having trouble trying to download a list of pairs from a mapping (bam files) either usi...
• BEDTools: BED TO BAM Converter
  Hey guys! I'm trying to convert a BED file that i downloaded from epigenome roadmap to a bam file...
• Error "Out Of Memory" When Trying To Retrieve Output
  Hello, I wanted to download the accepted junction .bam file from tophat output of my local instan...
• Zipping Files To Download
  I would like to know if it is possible zip files in Galaxy before download to my computer. How ca...
• Galaxy files biger than 2GB
  hELLO Do smb know how upload FASTQ file bigger than 2GB to Galaxy? Best wishes, Maciej Śmiałek -...
• Upload file from a server
  Hello there. Hope someone can help me. I get bam file data (up to 3 Gb). The files are in a serv...
• Convert BAM into bigwig for chicken
  Hi, I used functions of “Create a BedGraph of genome coverage” and “Wig/BedGraph-to-bigWig” in G...
• Problem Running Macs On Galaxy
  Dear galaxy, I am trying to run BAM files for Peak calling using MACS and for the larger files a...
• Mapping Illumina Reads Using Lastz
  Hello, I am trying to map metagenomic Illumina reads to the reference genomes. I used Galaxy LAS...
• Bam file can not convert into bigwig
  Hello, I got a bam file and upload to the Galaxy.  When I convert it into bigwig, it gives me th...
• To determine frequency of crispr cas induced indels in bam files
  I have used CRISPR/Cas molecules to target a specific gene. I want to quantify the frequency of i...
• RNA-seq analysis in Galaxy
  I am doing RNA-seq analysis for several mouse samples and I encounter problems during differentia...
• Dataset format conversion from fastq to bam and vcf
  Hello, I am a begginer in the galaxy and I want to ask you how can I convert fastq files to bam ...
• How can I get the specific locus of the Bam file
  Hello everyone I want to find a specific locus from bam file on Galaxy, and indeed want to know ...
• Galaxy instance on jestream- cluster error for downloaded files
  I am using a galaxy instance on Jetstream but have run into a problem getting data files into gal...
• Download of large files stops at 1GB
  On my local Galaxy installation I cannot download files bigger than 1GB from the history. The dow...