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  Hi, I'm using Galaxy public on a windows computer. The 'Count intervals in one file overlapping ...
• Counting Intervals In One File Overlapping Intervals In Another File - What Are The Hidden Settings?
  Hi, I am using the "Count intervals in one file overlapping intervals in another file" tool (part...
• Has the operate on genomic intervals - intersect feature been removed?
  Hello, The intersect tool under "Operate on Genomic Intervals" has suddenly disappeared.  Is thi...
• Count intervals of non-uniquely mapped reads overlapping the genome
  Hello everyone, I have some SAM/BAM files containing the alignments of small RNA-seq reads to mm...
• bedtools, changing output attributes
  Hi, I'm using the bedtools "Intersect intervals find overlapping intervals in various ways" tool....
• Counting Rna-Seq Reads Per Class.
  Hi All, I have been trying to count the number of RNA-seq reads that fall into the various Cuffli...
• Genomes no longer available after database migration
  I recently moved out production galaxy from one postgres database to another. In the process I ca...
• Peak Overlap Analysis, Allowing Space Between "Overlapping" Peaks
  Hello - I have been trying to find a solution to identify overlapping peaks between two ChIP-Seq...
• what features are counted by 'compute both depth and breadth'?
  I used the bed tool Compute both depth and breadth of coverage', but it is not clear to me whethe...
• Count pf overlaps tool ?
  Which tool should I use now that the "count overlaps" tool is not available anymore? Thank you i...