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I have a sequence of `27bp length`, and I want to find out the `exact match of this sequence, and all the sequences that have 1 mismatch and 2 mismatch`, by the method of graph.
I used `bowtie1` to…
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Hi !
I have followed the **Minigraph-Cactus Pangenome Pipeline** to construct a graph-based pangenome and output the index using Giraffe. Additionally, I have used Giraffe to perform read mapping f…
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Hello,
I've generate a graph genome using the cactus pangenome workflow for five insect assemblies, with small genome size (~230Mb).
The workflow completes successfully, and generates the indexes fo…
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Hi there I'm working on a `LaTex` documents where I'm using several `tcolorbox` code blocks for the BASH language. In one of them I happen to have a parameter for a tool of such form: `0.03`. Apparent…
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Hi there,
I am using seqwish to build pangenome graph. I would like to inquire if seqwish supports output with nodes as single characters. Could you please confirm if this functionality is availabl…
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**Assignee:** Ali Haider Bangash
The first step is to identify what data could be integrated through a knowledge graph and what is available. What did the other Hackathon teams accomplish? What is …
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Hello,
I find there are a fewer SNP overlap rate between the callset form pangenome-graph-from-assemblies and the GATK results. What could be the reason? The article seems to only compare the abili…
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I created [this issue over on the Cactus Git page](https://github.com/ComparativeGenomicsToolkit/cactus/issues/1106#issue-1818858818). You can see the errors using gcc 10.3 and 13.0.1. Is there a fix …
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Any fix for this? running:
`build-tools/downloadPangenomeTools`
```
c++ --version
c++ (GCC) 10.2.0
```
```
c++: fatal error: Killed signal terminated program cc1plus
compilation terminated.
…
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Hi Hannes,
Would it be possible to include a feature for obtaining some mapping statistics after read realignment to the pangenome?
Use case: Comparing the coverage between two regions after the…