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hi, i ran into a similar issue as https://github.com/soedinglab/hh-suite/issues/337 and https://github.com/google-deepmind/alphafold/issues/661. i have also tried -db_preset (as suggested in #661) but…
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**Describe the issue**
When running RepeatModeler, I am consistently getting the same issue at the clustering step of the LTR Pipeline. I am getting essentially the same error message as in #241, h…
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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 are conserved. And I want long motifs (about 16).
…
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Hi there,
I have got an error at stage 5 indicating that the header of fasta files are not correct:
processing file GCF_014441545.1_ROS_Cfam_1.0_protein.fasta
The ID on def line '>GCF_014441545.1_R…
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Hello Alex,
The annotation of my reference genome is in gff3 format. For genome indexing, I used:
STAR --runMode genomeGenerate --runThreadN 40 --genomeDir genome \
--genomeFastaFiles r…
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I am trying to run NINJA on linux
I get the following error on using the command
python /home/genetics/Desktop/Ruchi_SRF/NINJA-OPS-master/bin/ninja.py -i /home/genetics/Desktop/Ruchi_SRF/Cases_…
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Hello,
I tried to launch `nanook align` on reads that I had extracted in the fastq format, but this failed:
```
Directory [...]/fasta/Template doesn't exist
Directory [...]/fasta/Complement doesn't …
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In an effort to write unit testing for the Newick file importer that comes with Tripal, do you have a file that could be shared? We would need the file in newick format, a FASTA file containing all o…
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Hello,
I think 'split_dis' is a great idea and I want to use it to help me get better genome assembly, for example, to generate more complete repeat region, but I have some question about the usag…
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Hello @PhHermann
First of all thank you for this great package.
I am attempting to run LDJump using a vcf file that contains missing data.
vcfR introduces NAs instead of Ns for missing sites, hen…