User: Jesse Erdmann

gravatar for Jesse Erdmann
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60
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New User
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Last seen:
5 years, 10 months ago
Joined:
7 years, 9 months ago
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j*******@umn.edu

Posts by Jesse Erdmann

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Samtools Filter Pileup "Only Report Variants?" Option Is Misleading
... In using the filter pileup tool we've discovered that the option "Only report variants?" will throw away lines that have indels provided that they do not contain any SNPs. For example the line: chr1 88427041 C 38 ..+1A..+1A.....+1A.,..+1A.....,.+1A,.,......,...,^~.^~,^~,^~, HHHHHFE ...
snp written 5.9 years ago by Jesse Erdmann60 • updated 5.9 years ago by Jennifer Hillman Jackson23k
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Ordering Workflow Inputs On Run?
... Hi, I have a workflow that requires a large number of files that happen to come in pair but are processed by different tools. One tool allows the user to specify inputs 1...N and produce a single output. The other tool takes a single input and produces a single output. In the simplest example sa ...
written 6.9 years ago by Jesse Erdmann60 • updated 6.9 years ago by James Taylor470
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Abyss
... I've done a little searching but haven't found anyone that has wrapped ABySS for Galaxy. Does anyone know of an existing wrapper or is anyone willing to share one? If nothing else it would be nice if we could find a starting spot. Thanks! -- Jesse Erdmann Bioinformatics Analyst Masonic Cancer Ce ...
galaxy written 7.2 years ago by Jesse Erdmann60 • updated 7.2 years ago by Jennifer Hillman Jackson23k
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Workflow Questions
... I have two questions about constructing a workflow, or possible requests for changes. 1) Is it possible to rename a file output by a task in the workflow? For instance, it would be nice to specify the name of two files concatenated together rather than have it named something like "Concatenation o ...
written 7.6 years ago by Jesse Erdmann60
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Problem W/Cheetah, Repeating Dataset Input
... Hi all, I'm using the following XML: ... 10% 15% 20% ... #for $merge_set in enumerate( $to_merge ) ...
galaxy written 7.7 years ago by Jesse Erdmann60 • updated 7.7 years ago by Daniel Blankenberg ♦♦ 1.7k
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<Configfile> Syntax
... I'm getting started with deploying tools to a galaxy site and I'm having a little trouble understanding the appropriate syntax for the contents. I see there are a few examples in tools currently available within the galaxy distribution, but I'm wondering if there is a complete set of documentation ...
galaxy written 7.8 years ago by Jesse Erdmann60 • updated 7.8 years ago by Nate Coraor3.1k

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