What are RIKEN genes? - Bioinformatics Stack Exchange
There are some specific genes with name ending with suffix 'Rik' (e.g. 0610005C13Rik or 0610007C21Rik). Searching online I found that they are from RIKEN project.
Common gene naming conventions and how to convert between them
Mar 19, 2021 · These look like Mouse Gene identifiiers. You might be able to use org.Mm.eg.db to map them to aliases. There should be a way to use biomaRt as well, but I don't know the speciifics - …
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chip seq - Nextflow error: “Invalid method invocation call with ...
Nov 3, 2025 · I’m building a ChIP-Seq pipeline in Nextflow, and I’m running into this persistent error when trying to connect two processes that utilize HOMER's ...
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Dec 12, 2024 · I'm interested to extract highly correlated SNPs. I need to use them in a simulation study to test a method's performance for independent SNPs and correlated SNPs. My interest is not …
Newest 'sequence-alignment' Questions - Bioinformatics Stack Exchange
Dec 23, 2025 · How long should vsearch --usearch_global take for large nucleotide FASTA comparisons, and are there faster alternatives? We are trying to build an immune repertoire. As an …
how is log2foldchange calculated in DESeq2
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Prune GTDB phylogenetic trees to given taxonomic resolution
Aug 6, 2025 · I need some help in modifying GTDB's phylogenetic trees to achieve a given taxonomic resolution. I have downloaded the Archaea and Bacteria trees from GTDB's repo …
python - How to perform liftover from 38 to 37 in R? - Bioinformatics ...
Nov 18, 2023 · I have some gwas summary statistics in GRCh38 that I want to lift to GRCh37. I am trying to liftover in R using this code: library (tidyverse) library (magrittr) library (data.table) library …
How to manually curate a genome assembly for sequence variation or ...
Jan 27, 2022 · I have a PacBio HiFi assembly of 1.1 Gb from a heterozygous species. I have aligned this assembly against a reference genome which is around 0.9 Gb. I can see that there are quite a few …