If a transcriptome sequence set is available for the organism, kallisto can be used for transcript quantification. The kallisto version I used was 0.43.1, which was previously installed using Homebrew by the command like brew install kallisto.
kallisto index -i index transcriptome.fa
kallisto quant -i index -o …Following instruction in sleuth official page,
sleuth was successfully install except there was a permission problem in my /usr/local.
I fixed that with a command, sudo chown -R bono /usr/local.
I have continuously updated my blog in Japanese which was hosted in my server at home. The server was broken early this month, and I thought how to resume that.
I published a book for biological data analysis in Japanese which was a clean summary of my blog in Japanese …
Joined SPARQLthon for Jan 2018 was held at DBCLS Kashiwa. This was 64th SPARQLthon.
I will hack for the development of AOE, index of public omics (gene expression) data.
Tackling to hack parsers for inputing metadata from NCBI GEO utilizing DBCLS SRA API. Thanks to this API, we …
Blog in English by bonohu has just been started using Pelican and github. This blog will focus on technical issues on data handling in life science.
The website I referred.
Shell commands to update contents below.
# switched to pelican branch,
git checkout …