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I have been asked to review this manuscript for JOSS. https://github.com/openjournals/joss-reviews/issues/6579
The JOSS guidelines require me to consider:
> Whether the software is sufficiently …
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This would likely make a good worked example / test case:
> Landa et al. (2021) Diversity of Phytophthora Species Detected in Disturbed and Undisturbed British Soils Using High-Throughput Sequencin…
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**Describe the bug**
Some sequences in the campaign are extraordinarily loud. Most notably the transport sequence during Alpha 3 and the NEXUS transition in Gamma 8.
**To Reproduce**
Steps to rep…
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I have used mason_variator to simulate different types of structural variants.
The problem is that I need simulations for inter-chromosomal translocations and indels given two chromosome A and B.
For …
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Compared to the method of using the CLS token provided by BERT to extract the entire sentence embedding, is Mamba's method of placing the CLS token effective? My intuition is that the CLS token in Mam…
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At the moment, the core haplotype calling algorithm considers only a collection of explicitly designated SNPs. But there is often rare/cryptic variation at non-target sites within the locus. This thre…
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The `sysvabi64/sysvabi64.rst` document contains sample PLT sequences where x16 holds the address of the `.got.plt` entry. Some rtld implementations, such as glibc and FreeBSD rtld, with lazy PLT resol…
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Hello, everyone!
This is an incredibly useful package and I've been using it a lot since last year.
Recently, I started designing my primers using the DECIPHER package. It returns several variant…
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Looking through the source code and specifications document, I've noticed that both compress and decompression spill to disk for large files. This is particularly problematic in the decompression scen…
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Hello @acesnik ,
I am opening this issue here so I can share some thoughts of what I perceive as some issues with the format of the output fasta file from Spritz to be used in FragPipe as initiated…