Lesson Open Access

Training material for single-cell RNA-seq data analysis (Galaxy Training Network tutorial)

Tekman, Mehmet

The data provided here is part of the Galaxy Training Network tutorial that analyses single-cell RNA-seq data (scRNA) using cell barcodes and data from Freiburg MPI Grün Lab. This dataset (GEO Accession: GSM2668223) consists of paired-end data from the bone marrow of a 5-week old male C57 mouse, with a downsampled subset to facilitate ease-of-processing during live demonstration.

The Plate/Batch datasets were generated by simulated cells using R scripts elucidated in the simulatingcontamination.html file.

Files (1.3 GB)
Name Size
celseq_barcodes.192.tabular
md5:b7d517de7df1f26170e8322783657fc4
1.3 kB Download
Mus_musculus.GRCm38.93.mm10.UCSC.ncbiRefSeq.gtf
md5:f70b5a1f8985d1d150538987bbf6b1fc
264.7 MB Download
P1_B1.tsv
md5:e2ac387a7a49890685e88e2ce37b6834
6.3 MB Download
P1_B2.tsv
md5:f1d99cfa6db8373bdb99efc0965d00e2
5.9 MB Download
P1_B3.tsv
md5:bec02bb72819941acae7d4e6e58173a8
6.4 MB Download
P1_B4.tsv
md5:849b22751e1f832c9c377c17fbba6b05
5.7 MB Download
P2_B5.tsv
md5:9bb9accaa28b5fec5d4e0a6af5ed5d75
6.7 MB Download
P2_B6.tsv
md5:8b1d2658eacc6be705aea09288b823ae
5.1 MB Download
P2_B7.tsv
md5:948a8a1d3c2d7f7e8c55f47d31edf962
5.4 MB Download
P2_B8.tsv
md5:70dcb3cae2169788506f3761ebea1550
5.5 MB Download
simulatingcontamination.html
md5:663d62da88782a4cd0421a7199c6869b
22.0 kB Download
SRR5683689_1.fastq.gz
md5:09b7efb0fb38fa1fdcc9d397e06032ce
239.1 MB Download
SRR5683689_1.subset.fastq
md5:fc33c2818c07870f32749516eb68e8d7
12.9 MB Download
SRR5683689_2.fastq.gz
md5:aae3e3f24fcf2be55374320a6cdb9990
686.6 MB Download
SRR5683689_2.subset.fastq
md5:1ec52083d286c167b801d58482702a7c
24.1 MB Download
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