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Hello,
I'm experiencing compatibility issues when using MetaPhlan3 (3.0.9) input in export2graphlan (0.22). I'm not getting any error but the resulting Graphlan (1.1.3) graph is incorrect. See imag…
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FYI: estimated genome size is 2.2 Gb and coverage of illumina ~ 70X and PacBio coverage: ~14X
Getting memory allocation error below (using MaSuRCA v3.2.6) :
terminate called after throwing an…
nm100 updated
2 years ago
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Hi Alex
I have been trying to generate index for Danio rerio using these fasta and gff3 file:
http://ftp.ensembl.org/pub/current_gff3/danio_rerio/Danio_rerio.GRCz11.103.chr.gff3.gz
http://ftp.ensem…
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https://github.com/uclahs-cds/pipeline-Nextflow-config/blob/f3448ac26989391df434a3d9c59a9227b136431d/config/schema/schema.config#L63
I found this error can be unclear sometimes. In my case, one of …
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**Describe the bug**
Some text of plan is missing in .docx download of DMP
**To Reproduce**
Steps to reproduce the behavior:
1. Log in as Super Admin to DMP Tool
2. Go to this DMP (unsure if ha…
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New error when running taxonomy
**Command:**
cd $tmp
in_dir=/projects/cmi_proj/blood_microbiome/niaid/combined
out_root=$in_dir/shogun
align_dir=$out_root/wol_alignments
taxonomy=/projects/c…
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```
What steps will reproduce the problem?
1.
Download Homo_sapiens.GRCh37.60.dna.toplevel.fa.gz from
ftp://ftp.ensembl.org/pub/current/fasta/homo_sapiens/dna/
2.
MosaikBuild -fr Homo_sapiens.GRCh37.…
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It seems the martinze2 cannot recognize the DNA.
The error is
WARNING - unknown-residue - Can't add bonds based on atom names for residue A-DT1 because 'Residue DT is not known to force field charm…
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3.11.1 (v3.11.1:a7a450f84a, Dec 6 2022, 15:24:06) [Clang 13.0.0 (clang-1300.0.29.30)]
CPython
macOS-12.7.6-x86_64-i386-64bit
1.84
### Expected behaviour
seqform genbank
##The warning line…
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So, I performed direct RNA sequencing on nanopore and got fast5 files for them. When I do tombo resquiggle, should me reference fasta file by DNA or RNA sequence in fasta?
For instance, if I sequen…