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Hi all,
Thanks for having develop these tools. I have run on test of synteny between 2 species with on chromosome-scaled reference genome and one more fragmented draft genome. I have aligned it wit…
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Hi,
I have been using minimap2 for many genome to genome alignments and I have noticed an odd pattern.
If I take a large genome like a human genome and align (paf output) the whole chromosomes …
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**Datasets > Other data**
- Create a new subfolder for mappable genome
**Create new section to explain the mappable genome**
- The mappable genome was created by Claudia Arnedo in the Hotspots pr…
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I encountered a bug called ValueError: too many values to unpack (expected 2) when I runned the following codes:
# Construct the flow expression matrices
commot_output_key = 'commot-CellPhoneDB_v4.0…
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I want to sketch a genome to get 7-mers of amino-acids (ie peptides), so I give the new CLI a spin:
```bash
sourmash sketch translate -p k=7,k=10,scaled=1000,dayhoff genome.fasta
```
However, …
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Hi!
I am using Hmmer3 with bivalve genomes looking for 70-80 aa genes. BUSCO scores for the genomes are in the upper 90s (96-98% complete for BUSCO Metazoa) and most assemblies are chromosome-scale…
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Hi,
I'm trying to understand the GC_links( ) function a bit better and it looks like the example charts on the GC_links page don't reflect the changes in code.
When you use the GC_links functi…
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First off, thank you for the fantastic tool @jtlovell!
I noticed that there are some old issues (#121 and #127) where folks were interested in highlighting a single gene or small region. I have enc…
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@cschlaffner :
We have an ongoing project to release PTMs and single aminoacid variants coordinate at genome scale. The idea is that the users gave a region of the genome and we can trace all the …
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Hi! It's me again :) I find out that baga can't finish the last part of Comparative Analyses with my data and it's shown this:
```
-- Comparative Analyses --
Provide --genome_name or --genome_length…