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I tried to build a reference genome. I got the following error:
> The following mandatory metadata missing from gtf: transcript_id, gene_id
> In addition: Warning message:
> In .local(con, format…
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I can load my fasta and run the indexing function fine, but it simply produces nothing. The outpout looks like below in my terminal:
[build] loading fasta file Homo_sapiens.GRCh38.cdna.all.fa
[bui…
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Hi, I would like to know how STAR usually handles highly variably gene sequences like V(D)J sequences that code for parts of the TCR / BCR (T-cell and B-cell receptors), please?
I guess it depends …
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Hi, when running 'python setup.py install' in order to install ANARCI, I get a lot of errors and cannot install. I have tried to understand where things go wrong, and at one point the program is tryin…
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Hi,
I've been trying to run `find-motifs` for a few days, but I keep running into errors. I've updated modkit to the newest version (0.3.1), but that doesn't seem to resolve the issue. This specif…
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Hi!
I was trying to run the pipeline using a SMB-mounted directory in a network cluster, but I got an error at the beginning regarding symbolic links:
"Command error:
ln: failed to create sym…
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bash create_Drop-seq_reference_metadata.sh \
-n Homo_sapiens_genome_annotation \
-r /mnt/d/linux/ceshi/hg38.fa \
-s Human \
-g /mnt/d/linux/ceshi/hg38.gtf \
-o /mnt/d/linux/ceshi
Er…
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Hello, can you help me make sense of this error? I am trying to get the gene regions from Homo.sapiens but I am having trouble with it dropping genes and can't find a way around it. Thanks!
> regio…
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This needs to be redone. The function has changed drastically.
Hammerstone:
Old Code:
New Code:
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I'm sorry for submitting an issue here.
I tried to download these databases using zsync.
https://resources.aertslab.org/cistarget/databases/homo_sapiens/hg38/screen/mc_v10_clust/region_based/hg38_…