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.html was not found.

16

Hello, I'm trying to run runStreme but the function returns an error when it tries to find the html file. Error in error_file_not_exist(.) : /mnt/c/Users/folder1/streme.html was not found. I checked...

eladzis

Maxmium input for RunMeme()?

6

Hi, I am recently tried to use R version of MEME to get motifs. My purpose is try to include different size of input fasta to see whether the motifs...

LuBeifang

`runAme(sequences, control = "shuffle", evalue_report_threshold = 30)` get `FATAL: Template does not contain data section`

4

Hello: I run the example codes in the `README`: ```r check_meme_install() ``` ```bash checking main install ✔ /home/dan/meme/bin checking util installs ✔ /home/dan/meme/bin/dreme ✔ /home/dan/meme/bin/ame ✔ /home/dan/meme/bin/fimo ✔ /home/dan/meme/bin/tomtom ✔...

danli349

I've played around a little and came up with a few examples that showcase how `runMeme` can be used. This kind of examples would have helped me getting my head...

seb-mueller

runmeme breaks when providing control

4

Hi @snystrom, apologies for another issue, but since I'm playing around with this nice package I keep hitting edge cases I suppose. This time it's about `runMeme`, which breaks given...

seb-mueller

glam2 for variable length motif discovery

5

First of all thanks for this fantastic package! In addition to streme and meme, I was wondering if it is possible to somehow also [Glam2](https://meme-suite.org/meme/tools/glam2)? I'd imagine this could be...

seb-mueller

From release notes: > Removed --parse-genomic-coord switch and added --no-pgc switch. Now, by default, FASTA sequence headers are always parsed for genomic coordinates unless the --no-pgc option is specified.

snystrom

TomTom error with HOCOMOCOv11 mouse database

3

When using streme output, it seems some databases throw an error due to a missing column that's expected. ``` hocomoco.dn

j-andrews7

test tomtom database with no altname

2

Pretty sure the no altname issue carries over to the tomtom database entries as well. Need to fix this using `any_of` and `dplyr::rename_all(recode, alt = "altname")` where needed. Or initialize...

snystrom

xstreme api

1

Do you plan to support the new [xstreme](https://meme-suite.org/meme/tools/xstreme) tool?

tbrittoborges