User: joshua.steier

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Posts by joshua.steier

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Comment: C: Issue with replicating from a research paper-motifs
... Thanks! Using Conda was much better than the standard methods. I ran it on 4.11 and 4.8, the authors' results showed on both of those. So the version must be causing the discrepancy as you said. I'm going to try to replicate given the now correct motifs from the old version. Do you suppose it is als ...
written 25 days ago by joshua.steier20
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Comment: C: Issue with replicating from a research paper-motifs
... Update: I found out the authors are using MEME version 4.10.1. Do you think this likely caused the discrepancy? I'd like to test it out but I'm having some difficulty getting 4.10.1 to work on linux server. ...
written 27 days ago by joshua.steier20
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Comment: C: Issue with replicating from a research paper-motifs
... Thank you for your help :) ...
written 5 weeks ago by joshua.steier20
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Comment: C: Issue with replicating from a research paper-motifs
... Thanks for adding it to the question, your help is greatly appreciated. I looked at my results again and couldn't find that motif. I'll try contacting the authors, I appreciate your suggestions. ...
written 5 weeks ago by joshua.steier20
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Comment: C: Issue with replicating from a research paper-motifs
... Hi, I just ran MEME under that version for the motifs and got the same results as I got before. ...
written 5 weeks ago by joshua.steier20
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Comment: C: Issue with replicating from a research paper-motifs
... You're correct to address that, I believe our MEME versions are different. The one I'm using is 5.0.5 and the one they used is most likely 5.0.0. Would the difference in version cause this much of a difference? ...
written 5 weeks ago by joshua.steier20
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Comment: C: Issue with replicating from a research paper-motifs
... Here is the Motif they are showing: (57) ![motiftheygot][1] Here is the motif I got: ![motifIgot][2] [1]: https://i.ibb.co/MPx3kfz/motif.png [2]: https://i.ibb.co/x7P87Lz/motif-Igot.png ...
written 5 weeks ago by joshua.steier20 • updated 5 weeks ago by geek_y9.7k
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Issue with replicating from a research paper-motifs
... Greetings, I've been trying to replicate results from the following research article: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-018-2378-9 In the paper, there is a figure that describes motif #57 with a sequence logo and its position weight matrix. I took the data from th ...
fasta rna meme sequence motif written 6 weeks ago by joshua.steier20 • updated 5 weeks ago by geek_y9.7k

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