How to download iGenomes from S3

Hi all, I run a pipeline on HPC that got an error with pulling iGenomes from S3 so I try to download it to my cluster but don't know how. Would you have a suggestion? Thank you so much. enter image description here

https://ewels.github.io/AWS-iGenomes/

igenome

• 2,071 views • link

written 3.2 years ago by Chris •

1 answer

Use the following

wget http://igenomes.illumina.com.s3-website-us-east-1.amazonaws.com/Homo_sapiens/Ensembl/GRCh37/Homo_sapiens_Ensembl_GRCh37.tar.gz

• 0 views • link

written 3.2 years ago by GenoMax

Thank you!

• 0 views • link

written 3.2 years ago by Chris •

More posts like this

Help with single cell annotation
written 2.9 years ago by Chris •

Hi all, I am trying to do cell type annotation and got some difficulty. Automatically annotate using singleR is different than annotation using knowledge of …
Output FindMarkers()
written 2.9 years ago by Chris •

Hi all, Would you please share why I got peaks instead of genes when using this command: compare_0 <- FindMarkers(merged_seurat, ident.1 = 'WT_0', ident.2 = …
About the value in bigwig file
written 3.1 years ago by Chris •

Hi all, I want to compare the peaks to see which condition has more chromatin open and I got advice that I should adjust all …
Sample sheet file for DiffBind
written 3.1 years ago by Chris •

Hi all, I got around 100k differential peaks which someone advices me there is something wrong in my ATAC-seq analyses, so I am trying to …
Interpret plots from DiffBind
written 3.2 years ago by Chris •

Hi all, I have 4 samples which are 4 conditions but when I made some plots, I got only 2 conditions.![enter image description here][1]. Does …
About per tile sequence quality
written 3.2 years ago by Chris •

Hi all, I check a pair-end read sample and got this per tile sequence quality. ![enter image description here][1] ![enter image description here][2] Should I …
Positive and negative value fold value in ATAC seq using DiffBind
written 3.3 years ago by Chris •

Hi all, Does positive fold in this case mean the gene in diseased group is more accessible than the control group? The object is created …
Interesting discrepancy between NGS (Illumina) and Sanger seq.
written 3.6 years ago by Manuel •

I have an interesting case I would like to share with you From our NGS bioinformatics pipeline we got the following 4 variants (top of …
Error with import scvi in scRNA-seq with scanpy
written 3.8 years ago by Chris •

Hi all, I try to follow the tutorial below and get an error. https://github.com/mousepixels/sanbomics_scripts/blob/main/single_cell_analysis_complete_class.ipynb ![enter image description here][1] [1]: /media/images/36d858a6-7092-40dc-9b7a-693a6c0e What is wrong in my …
How can I add text label outside the tree in iTOL ?
written 5.3 years ago by anran04100 •

here is the tree in iTOL ![enter image description here][1] now I've got a txt file with information in it ![enter image description here][2] How …