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Steps to recreate bug:
1. Load a gene set (I used the default gene set.)
2. Add the Mouse mm9 to hg19 blastz genome comparison track
3. Load the find orthologs app. Load the gene set. Click Find or…
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Hello,
I have a set of 100 UniRef proteins. I want to find orthologs of this set of proteins against a set of 44 transcriptomes. Would OrthoFinder help me in this ? I know OrthoFinder can find orthol…
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We need to pull a series of data to inform which genes to look for variants in.
There is a google doc here for reference,
https://docs.google.com/spreadsheets/d/1yX-5sfrC3vrahf4_k7-5rl4Oqzm853ol…
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Gene symbols (e.g. SSH) are a bit degenerate with respect to ortholog loci. This presents a couple of challenges for TKBIO:
1) The nature of the differences is not explicit in the UI, that is, two …
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As the title indicates, I recently used isONform full pipeline on data generated using ONT PCR cDNA [SQK-PCS109) kit. Using the output "transcriptome.fastq" with BUSCO gives me the error message "ERRO…
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Orthologs links seem to be broken in the gene view page, for instance, coming from:
https://wwwdev.ebi.ac.uk/gxa/sc/experiments/E-HCAD-4/results/gene-info?geneId=ENSG00000142937&markerGeneK=44&k=44…
pcm32 updated
4 years ago
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Hello,
I try to use your tool with two files containing cdna sequences, to determine pairwise Ks, Ka, and Ka/Ks values for orthologs (two distinct datasets). I blasted the XXX.cdna sequences vs the…
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pipeline 1:
prodigal -> just orthologs
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error running the processConservation
Hi Idan,
I have a problem when I run processConservation, I don't know how to resolve the error is :"Subroutine overlap redefined at scripts/Mapping.pm line 364…
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This is now available at https://stars.renci.org/var/babel_outputs/2024aug18/reports/duckdb/identically_labeled_cliques.tsv.gz -- note that column 3 is the files that these clique leaders come from, w…