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Hello members,
I am currently working with TPM expression data obtained from RNA-seq analysis, and my dataset includes a diverse range of biotypes such as miRNA, lncRNA, pseudogenes, etc., resultin…
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New cluster boundaries to match literature:
BGC0002530: 9552..16349
BGC0002531: 1680959..1711406
BGC0002692: 1419402..1426027
BGC0001055: 16770..45600
BGC0002476: 609459..629713
BGC0002571: 2306…
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Could be very informative especially in the case of COI samples (in general, useful for protein coding markers).
A tool that could be added are metaMATE (https://github.com/tjcreedy/metamate).
Also,…
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We have an object "Gene Info" which is used on the gene grid page (and also gene symbol?)
* Triplet Repeat Disorders
* Pseudogene
* Alternative Haplotype
These are made by uploading gene lists, then…
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As I was working on #101, I realized that some of the protein-coding sequences in the C. albicans FASTA file are not divisible by 3. This likely means these are pseudogenes. I don't think these will h…
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[Updated 20240911]
DAY 2 MORNING
| Exercise | Description | Completion |
| -------- | ------- | ------- |
| Q1A | Code present | YES |
| Q1B | `protein_coding` genes count correct | YES |
| Q1…
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QC chapter should include a short paragraph on filtering to retain only protein-coding genes.
This is a useful standard filtering step in most datasets, although in some contexts / depending on the…
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- Describe the format of counts and metadata; emphasize the need for sample identifiers to match
- Describe problems with missingness
- Describe how the stepwise regression will consider all variabl…
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Any thoughts on what gene catalyzes reaction R_y000208?
It is present in most yeasts but notably absent in the Yarli reference genome. I tried searching with BLASTP/BLASTN but had no luck.
https…
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Hi Vizueta,
I have the following questions after reading your articles(#Comparative Genomics Reveals Thousands of Novel Chemosensory Genes and Massive Changes in Chemoreceptor Repertories across Ch…