User: amitpande74

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amitpande7410
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3 years, 7 months ago
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Posts by amitpande74

<prev • 13 results • page 1 of 2 • next >
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chimeric transcripts detection tool
... Hi, How many tools can one find in the galaxy local too shed for detection of chimeric/fusion transcripts. Kindly help. I tried Defuse but many dependencies are not found. I want to use a tool which uses fastq or BAM files to start with. Thanks ...
software error rna-seq written 7 days ago by amitpande7410
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Answer: A: problems installing mothur
... Hi Jennifer, Thanks for your reply.....but my question was more on the side of the file and its format which has to be uploaded in the history. https://www.mothur.org/wiki/Oligos_File does not mention it explicitly....I even tried compiling mothur from its source code yet ....still struggling. If ...
written 4 months ago by amitpande7410
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Answer: A: problems installing mothur
... Hi, This question is regarding Trim with an oligos file option. https://www.mothur.org/wiki/Oligos_File How to supply this file ? ...
written 4 months ago by amitpande7410
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problems installing mothur
... Hi, I am trying to set up Mothur toolsuite from jjohnson on my local instance and having some troubles....it says mothur 1.33 was not found in conda. Kindly help. ...
galaxy mothur written 4 months ago by amitpande7410
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conda prefix galaxy local instance
... Hi, I have a local instance of galaxy )version 17.01) from github. I installed miniconda3 in my home directory. I want galaxy to use the conda executable from miniconda3 in my home directory. Accordingly, I set the galaxy.sample.ini configuration as : > # conda_prefix is the location on the fil ...
galaxy conda written 17 months ago by amitpande7410
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Possible PATH problem when installing tools in a local
... Hi, I am trying to install oqtans into local galaxy. Oqtans_tools folder has a file tool_conf.xml.oqtans. I copied this into the tool conf xml main file....why does it give error ? https://ibb.co/m5CVfv Can someone help ? regards. ...
local install tool_conf.xml admin tool written 17 months ago by amitpande7410 • updated 17 months ago by Jennifer Hillman Jackson25k
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Answer: A: local galaxy instance file upload error
... WSGI Variables -------------- application: controller_action_key: u'web.library_common.upload_library_dataset' is_api_request: False paste.cookies: (, 'galaxysession=c6ca0ddb55be603a6db6f10c014c1c7813ab64b080771df5777fc03416597f2ae4cf54d7c3c7833e') paste.expected_exceptions: [] paste.ht ...
written 18 months ago by amitpande7410
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local galaxy instance file upload error
... ![Hi][1] I am getting this error while uploading files to the local galaxy ! Kindly help [1]: https://ibb.co/itRZ3F ...
software error written 18 months ago by amitpande7410
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Answer: A: Deseq2 error running R script
... Hi Jennifer, I tried all possible ways to install deseq2_hts ...updated the galaxy version to 17.01...but still it requires oqtans to be installed which is not available in the dependencies. The fact with deseq2_hts is that one can analyze BAM files and then take the count tables to analyze them f ...
written 18 months ago by amitpande7410
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Answer: A: Deseq2 error running R script
... Hi Jennifer, I thought I had cracked the problem by configuring R. But the package I was trying to install is deseq2_hts from the tool shed repository. The deseq_config.sh.sample for this package requires oqtans package. Since this package depends on octave etc from the oqtans ....it seems like a n ...
written 18 months ago by amitpande7410

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Popular Question 17 months ago, created a question with more than 1,000 views. For setting up ftp for local galaxy instance

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