User: oigl

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oigl60
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Posts by oigl

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Answer: A: tool for genome sequence manipulation
... To work with an annotated genome you can use [UGENE][1] Sequence View. [1]: http://ugene.net/ ...
written 9 months ago by oigl60
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Answer: A: Sequence reads and complete assembly
... For studying purposes you can try these UGENE NGS tutorials: https://goo.gl/4Kspho or https://goo.gl/cxHCAU. ...
written 9 months ago by oigl60
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Answer: A: transcription factor binding site prediction software/server
... You can use weight matrices or SITECON to predict TFBS in UGENE. ...
written 3.8 years ago by oigl60
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Answer: A: Multiline Fasta To Single Line Fasta
... You can open the merged sequences in the UGENE Sequence View. To do it: Select "File>Open as" in the main UGENE menu. Select the "FASTA" format. Select "Merge sequences into a single sequence to show in the sequence viewer". By default, UGENE will show the sequence itself, the complementar ...
written 4.8 years ago by oigl60
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Answer: A: Where can I download the blast version that includes formatdb ?
... In UGENE full package you can use both BLAST and BLAST+ from GUI. The executables are also available in the external tool package. By the way, you might like to automate your pipeline with the UGENE Workflow Designer. ...
written 4.8 years ago by oigl60
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Answer: A: Best tools for circular genome visualization?
... Hi! I'm from UGENE team. We have a simple Circular View, but it produces nice images, so I thought, you might like to try it. Note that we're going to improve Circular View in the program future versions. Any feedbacks are welcome. ...
written 5.0 years ago by oigl60
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Answer: A: Differential expression Tophat/cufflinks
... You can run the tools through the UGENE graphical interface. For details see this page. A brief video introduction is here. To start you will need to download and install a full or NGS UGENE package for your operating system. All tools are available out of the box for Linux and Mac OS X. Then you o ...
written 5.1 years ago by oigl60

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Teacher 5.0 years ago, created an answer with at least 3 up-votes. For A: Best tools for circular genome visualization?

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