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I am encountering difficulties in downstream analysis due to the inability to locate the correspondence between the numerical identifiers in the output matrix and the subfamily and loci of transposabl…
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New issue so we can keep a track of running of scripts.
I'm currently test-running the annotation pipeline on the cluster, without PhaseMatch2. I've edited the size classes based on the density plo…
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## 1. Bug description
I was previously using the following code to extract the GWAS summaries of **1)** Biological insights from 108 schizophrenia-associated genetic loci. Nature, 2014 **2)** Ge…
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see: https://github.com/biolink/biolink-model/issues/667
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The issue of dealing with chromosomes longer than 2Gbp [came up again recently in samtools](https://github.com/samtools/samtools/issues/1669). Htslib/Samtools can cope with 64-bit chromosome coordina…
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When running susie_rss, I get an error:
Error in if ((elbo[i + 1] - elbo[i]) < tol) { :
missing value where TRUE/FALSE needed
I only get this error for a small proportion of regions I'm test…
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It appears that gutSMASH requires a genbank that includes sequence data, given that if one provides a genbank lacking sequences (the default output from prodigal), one gets the error:
```
INFO …
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Hello Dr Vivian:
I developed a raw pipeline following your instruction. I checked the RSEM gene expression results on Xena:
https://xenabrowser.net/datapages/?dataset=tcga_RSEM_gene_fpkm&host=ht…
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Dear kasearch team,
First of all, thanks for all your work, kasearch is really promising!! I'm really hoping I can get it running soon.
I'm trying to run EasySearch on the sample sequence. I dow…
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Dear all,
I think that adding a EMBL parser would be useful to deal with data stored in ENA. I think that I could use `skbio.io.format.genbank` and `skbio.io.format.tests.test_genbank` as a model to…
bunop updated
7 years ago