Open sunta3iouxos opened 1 month ago
Thank you for your message. I am out of office till July 19th. I will answer your email once I am back in my office.
In urgent cases, please, contact ngs-core[at]lit.eu
Kind Regards, Nicholas Strieder
--
Dr. rer. nat. Nicholas Strieder
LIT NGS CORE Bioinformatics LIT - Leibniz-Institut für Immuntherapie (ehemals RCI) c/o Universitätsklinikum Regensburg Franz-Josef-Strauss Allee 11 93042 Regensburg
Postaddresse und Büro: Universtität Regensburg LIT NGS Core 8.OG, Raum V801 Bajuwarenstr. 4, D-93053 Regensburg Tel.: +49 (0)941 943 68551 Email: @.*** www.lit.eu
This message is intended only for the use of the named recipient(s) and may contain confidential and/or privileged information. If you are not the intended recipient, please contact the sender and delete the message. Any unauthorized use of the information contained in this message is prohibited.
sunta3iouxos @.***> 15.7.24 12:33 >>>
Hi all, I was wondering if the provided preindex sequences that are available for the snakepipes have taken into account the following:
from: https://lh3.github.io/2017/11/13/which-human-reference-genome-to-use https://www.biostars.org/p/342482/ Thank you
-- Reply to this email directly or view it on GitHub: https://github.com/maxplanck-ie/snakepipes/issues/1018 You are receiving this because you are subscribed to this thread.
Message ID: @.***>
Hi,
we have bundled ensembl genomes with snakePipes, I believe the "toplevel" fasta version. Indeed, these might be affected by some of the issues mentioned by Heng Li in the blogpost you shared. We haven't optimized snakePipes for variant calling. I'm wondering if any of those issues would affect the allele-specific analyses though.
Best wishes,
Katarzyna
Hi all, I was wondering if the provided preindex sequences that are available for the snakepipes have taken into account the following:
from: https://lh3.github.io/2017/11/13/which-human-reference-genome-to-use https://www.biostars.org/p/342482/ Thank you