Analyze unaligned ncrna2 #1678
Analyze unaligned ncrna2 #1678
Conversation
…nto analyze-unaligned-ncrna2
…nto analyze-unaligned-ncrna2
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@eggzilla this PR is now almost 4 years old, shall we close it or do you plan to work on it still? |
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@pavanvidem do you think you have time to finish this one? |
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It seems to be finished and ready to review. Let me test it once. |
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Great, thanks for looking at it @pavanvidem! |
| - eggzilla | ||
| - bebatut | ||
| editing: | ||
| - pavanvidem |
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(feel free to move yourself to authorship if this turns out to be more work than just a quick test @pavanvidem, just wanted to change this to use the new-style contributions metadata)
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| > <hands-on-title> Run multi-alignment tool and extract representative sequences from the alignment </hands-on-title> | ||
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| > 1. **MAFFT** {% icon tool %} with the following parameters: |
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@pavanvidem I've tried updating the tutorial to the latest GTN standards, but if you could just update the hands-on boxes to list the tools like below, at whichever version of the tool you use for the tutorial, then it will be compatible with GTN-in-Galaxy :) Thanks!
| > 1. **MAFFT** {% icon tool %} with the following parameters: | |
| > {% tool [MAFFT](toolshed.g2.bx.psu.edu/repos/rnateam/mafft/rbc_mafft/7.508+galaxy1) %} with the following parameters: |
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I tried the tutorial. It worked until the Align sequences and extract representative sequences step. Then it fails because Select Sequences tool produces empty alignments. I have to find different parameters to make it work. There are also some open questions in the tutorials. It needs more understanding of the topic to fill those gaps. |
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@pavanvidem thanks for testing it! Sure, we can just leave it open then until those last points have been addressed, just good to know there is still interest in finishing it :) |
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@pavanvidem any update on this? do you need help (and from who)? |
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I have contacted the authors but no luck. Unfortunately, we have to skip this tutorial. sorry! |
Hi, this branch supersedes the branch unaligned-ncrnas-analysis (#1502). I forked again from master on advise from @bebatut during GCC.