Hi, My name is Shruti. I have been contributing to Debian Med by writing autopkgtests for which I will be applying through GSoC this year. However, I came across this project which really interests me. I was initially planning on applying for this through Outreachy but unfortunately my application was not approved.
I have a background in wet lab and I have worked extensively with RNA-Seq and microarray workflows for analysis of clinical data (particularly lymphoma). Last summer I worked on harmonising cell line datasets (RNA-Seq and microarray) to identify biomarkers and molecular signatures driving immune resistance for chemotherapy in DLBCL patients. I would be happy to learn other workflows such as microbiomes, CHiP-Seq etc if needed. I would love to be able to work on this project since it aligns with my skills sets, however I noticed that this project is not available through GSoC. Would it be possible to offer this project through GSoC as well so that I can submit a proposal for this? Thanking you, Regards Shruti On Mon, Mar 8, 2021 at 5:19 PM Tony Travis < tony.tra...@minke-informatics.co.uk> wrote: > On 07/03/2021 23:47, Tassia Camoes Araujo wrote: > > Hi all, > > > > On 2021-03-05 11:09, Tassia Camoes Araujo wrote: > >> [...] > >> Since deadline is approaching quickly, I suggest we move this off-list > >> and start writing in a wiki or pad. > > > > Here is my first draft, pasted below for your reference, but you can > > edit the text directly in this pad: > > > https://storm.debian.net/shared/OCYsOOEqJ5-CcfjVxIiye-ex-4LheegyP1pkIFghMKa > > > > Help needed to write the Intern tasks section. Also, please check if you > > have better scientific articles to recommend and list a few tools to be > > used in the starter tasks. > > > > Please help shaping this proposal so it ***really*** makes sense and > > attract interns ;-) > > Hi, Tassia. > > I recommend using "flexbar", which I use, instead of "Trimmomatic": > > > https://github.com/seqan/flexbar > > Also, depending on the sequencing technology used, consider assembling > short-paired-end reads with e.g. Pear: > > > https://github.com/tseemann/PEAR > > HTH, > > Tony. > > -- > Minke Informatics Limited, Registered in Scotland - Company No. SC419028 > Registered Office: 3 Donview, Bridge of Alford, AB33 8QJ, Scotland (UK) > tel. +44(0)19755 63548 http://minke-informatics.co.uk > mob. +44(0)7985 078324 mailto:tony.tra...@minke-informatics.co.uk > > ᐧ
