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Hi Marcela!
I am trying to run MitHiFi with the testing data, the log file shows the pipeline is done, but no files were written to my working directory except for output files (.nhr, .nin, .nsq) fr…
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Hi there, I have a duplicate file from the --keep duplicates flag. However, I'm confused about how to automate retrieving the contigs that map to multiple UCEs. Because I am working with very small ge…
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[1cluster_run.log](https://github.com/user-attachments/files/17357852/1cluster_run.log)
HI, i am assemblying a insect genome about 11Gb , and run into the error issue, can you help me fix it ? Thank …
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Hi
BASALT is a nice work. I have some questions about it.
My question is how to merge clustered contigs from potential redundant bins by using the "Bin merging program" in BASALT.
In the paper …
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I am currently attempting to run the assembly step of the phyluce workflow using large server resources on my university campus. I first attempted with a small subset (5) of my samples using the follo…
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order level decontam.
see [notebook](https://github.com/dib-lab/charcoal/blob/master/eval/almeida-eval.ipynb)
big results:
```
contig info:
ContigInfo.CLEAN 223120 contigs / 4983.3 Mbp
Con…
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Hi,
I am running the BASALT, here is the last steps where BASALT stuck for couple of days-
```
mkdir: cannot create directory ‘coverage_filtration_matrix_10’: File exists
10 Coverage filtration…
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### suggestion
apply a minimum coverage filter to the `cov.stats` prior to making the `mapped.*.bed` files, which will ultimately reduce the number of contigs genotyped
### the minimum coverage va…
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Hi everyone I am new to MaSuRCA Reference guided assembly. I am using chromosome_scaffolder.sh for scaffoding. I have shared the log info, I don't know what is the error. Could you help me with this?
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Thank you for creating this great tool !
I had a slight issues running the tool on a FASTA file containing 3164 contigs
[phages_combined_fna.fasta.zip](https://github.com/edzuf/CrisprOpenDB/files/6…