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Given that I get a contig name like `RNODE_1_length_2185_cov_1230.39000`, how would I know which contig that is in the original file? I can search the coverage field `1230.39` to find the original co…
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Tools on which we are working currently:
* https://github.com/nanoporetech/scrappie
* nanoplot: https://github.com/bgruening/galaxytools/pull/771
Tools that are already integrated:
* nanopolis…
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Seems that node colors taken from csv files are not updated after new csv loaded if they are not directly mentioned in the new csv file. For example, if I load an empty .csv file, graph coloring remai…
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Out of 17 assemblys CE got to this step 4 times. 12 died with the following error message:
`[scr] Failed to align minimum amount of reads (10000) to reference clusters`
3 of the 4 that reached th…
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Please update assembly.py to run spade as the default assembly software, similar to quality control software the user shall be able to specify the assembly software. The default is spades (http://bioi…
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I'm getting the following error with a megahit assembly:
```Traceback (most recent call last):
File "/cluster/gjb_lab/jabbott/miniconda3/envs/metacoag/MetaCoAG/src/metacoag_main.py", line 269, in …
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Hello,
I've encountered an issue which prevents me from reproducing the example code for GetOrganelle. Essentially, it seems that GetOrganelle is searching for the bowtie2 large index file (.bt2l),…
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Hello,
I am looking at the contig graph produced using contig2fastg. I saw sequential contigs with no branching.
Maybe I am missing something but if there is no branching why are those contigs not …
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Hello,
I'm trying BASALT with a subset of my data. It looked to work fine until the step as follows that failed with the error in the title.
```
===== Mismatch correction scaffolds finished.
…
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Dear @Kinggerm
I use GetOrganelle to assemble the chloroplast of a species and I got 8 fasta files with different length. The fasta and gfa files is below. I hope you can give me some suggestion…