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I'm trying to perform RNA velocity with kallisto, bustools and their wrapper kb-python following the instructions in [this R Notebook](https://bustools.github.io/BUS_notebooks_R/velocity.html). But I'…
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Hello @Guilucand and @alexandrutomescu.
Let me first congratulate with you for this excellent algorithm!
We are currently using GGCAT for building [Fulgor](https://github.com/jermp/fulgor), a colo…
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### Reproduce the issue
#### 1. Required packages
- bcalm `conda install -c bioconda -y bcalm`
- sra-tools `conda install -c bioconda -y sra-tools`
---
#### 2. Data preparation
```bash
wg…
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Hi,
I'm trying to run `unitig-caller` (v1.3.0 installed using `bioconda`) on an HPC using a population graph that I generated with `bifrost`.
The command I'm using is:
```
unitig-caller --call -…
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Hi,
I am doing a denovo assembling a nanopore data of R7.3 chemistry. At first I converted the fast5 to fasta using poretools. After that I followed the pipeline, for the denovo assembly using minima…
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I'm wondering if we can convert the current bcalm output by spacegraphcats to gfa. These are the current output files in `*_k31`:
```
bcalm.inputlist.txt bcalm.unitigs.db cdbg.gxt con…
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I have noticed that the default parameter for '--ul-tip' is set to 6, which is explained as removing tip unitigs composed of less than or equal to INT reads during the ultra-long (UL) assembly process…
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Hi thank you for cuttlefish,
I have an output from cuttlefish at k=31
The unitigs don't seem to be maximal, there are multiple unitigs in a row shouldn't they be joined merged?
![cuttlefish_k…
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Hi John
I'm trying to filter out unitigs associated with antibiotic resistance. I used unitig-counter but I am not sure what output file I should use to use pyseer later. Could you specify the use …
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I just took a look at the GFA output and noticed that, unlike tools such as seqwish, Bifrost does not output the paths corresponding to each node. Is it possible to obtain the locations of each of the…