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https://github.com/brouwern/compbio2021/blob/4fc22d26cd66119a177fd9572bd409ffa989216d/KEY-MSA-walkthrough-shroom.Rmd#L203
I understand that we almost universally use the Fasta format for our nuclei…
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Hi, I'm working on an API where I need to get the sequence out of a .pdb file. The way the code base is set up now you need to have a local copy of the file, which would mean that you have to upload i…
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Support for fasta input and output options would be greatly appreciated!
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Key points for introduction:
- What are genome annotations? What type of features are included in genome annotations (protein-coding genes, pseudogenes, RNAs etc)? What sorts of things do biologists …
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Hello,
Thanks again for putting together RBPNet. I've been using some of the pre-trained models from the paper as a basis for transfer learning within a number of new models to some success. When …
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(Successor to https://github.com/pombase/canto/issues/1631)
Some time ago, PHI-base decided that we needed to curate sequences for genes in PHI-Canto, in order to work around the problems introduce…
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Hi, I still need to go through the details. I just installed and started the Test run. We have sequenced and assembled some ciliate genomes that have never been reported. I am a newbie in the field of…
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There are a couple of limitations to the current VCF that make it difficult to fully represent data using the full GRC assemblies, GRCh37, GRCh38 and GRCm38 specifically. These are:
- lack of represen…
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Hi there,
I am trying to run an amplicon-based (targeted panel) BD Rhapsody scRNA-seq data using kallisto/kallistobustools. Is there a way to map sample tags to cellular barcodes in order to ident…
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I've been taking a shot at porting this from NVIDIA/CUDA to M1/Metal, so that I can run it on my personal MacBook Pro (1 TB disk). I anticipated being able to port the entire framework in a single day…