-
`--strict` fails for every sample in a recent run, looks like a bug with the contig missing from the vcf header which is causing vcf_parse to fail.
Content of vcfreport.txt:
```
[16:35:15] [art…
-
## Synonyms
SARS-coronavirus 2
SARS-CoV-2
2019 novel coronavirus
COVID-19
2019-nCoV
β-coronavirus
-
**Mondo term (ID and Label):**
COVID-19
http://purl.obolibrary.org/obo/MONDO_0100096
MONDO:0100096
**Xref that should be fixed (ID and label):**
Current xrefs as per ontobee
> database_c…
-
Hi,
Firstly, thanks for the great tool.
I've been running a local installation of pangolin via the command line. Today I thought I'd compare the result to that given on https://pangolin.cog-uk.…
-
Hi,
for Uniprot release 2021-01 we require the following MONDO terms for mapping:
Not sure how the omim ingests work now on your end, so thought I'd raise this request. I have attached the DI de…
-
Hello,
I am using SnpEff to annotate SARS-CoV2 samples, the input is sample.vcf, reference used for mapping and variant calling is NC_045512.2
#First i downloaded the reference: java -jar snpEff.…
-
Aim: improve the maintainability of the project catalogue, allowing it to grow without causing an increasing amount of development overhead. Currently, it is populated via a manually run script that c…
-
```
org.biojava.nbio.core.exceptions.CompoundNotFoundException: Cannot find compound for: L
at org.biojava.nbio.core.sequence.storage.ArrayListSequenceReader.setContents(ArrayListSequenceReade…
-
Is there a way to retrieve a list of PDBs for a given organism?
Similar to PDB's internal "Source Organism Taxonomy Name".
mirix updated
4 years ago
-
As discussed, GloBI is going to index the active plazi transcription googlesheet
https://docs.google.com/spreadsheets/d/1Rq57pmrA3V3k_PrKWGG0Y65-ZN9TRR497lmUu9wx0Cc/edit#gid=0
fyi - @mguidoti @sli…