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@sbooeshaghi sbooeshaghi released this Jun 18, 2019 · 2 commits to master since this release

Below are the files needed for the species mixing experiment

  • 10xv3 Whitelist Barcodes
  • Transcripts to Genes map for Humans and Mouse
Assets 4
E-MTAB-6108_sample1_sample2_genecounts.zip
├── sample1
│   ├── genecounts
│   │   ├── genes.barcodes.txt
│   │   ├── genes.genes.txt
│   │   └── genes.mtx
│   ├── matrix.ec
│   ├── run_info.json
│   └── transcripts.txt
└── sample2
    ├── genecounts
    │   ├── genes.barcodes.txt
    │   ├── genes.genes.txt
    │   └── genes.mtx
    ├── matrix.ec
    ├── run_info.json
    └── transcripts.txt
Assets 3

@sbooeshaghi sbooeshaghi released this Jun 13, 2019 · 7 commits to master since this release

This page provides the files needed to follow the velocity started tutorial. The experiment is single-cell RNA-sequencing of human week 10 fetal forebrain dataset (SRR6470906 & SRR6470907) from this paper (https://doi.org/10.1038/s41586-018-0414-6).

Below are the:

cDNA Transcripts FASTA cDNA.correct_header.fa.gz
cDNA Transcripts list cDNA_transcripts.to_capture.txt.gz

Intron Transcripts FASTA introns.correct_header.fa.gz
Intron Transcripts list introns_transcripts.to_capture.txt.gz

cDNA Intron Transcripts to Genes map cDNA_introns.t2g.txt.gz

10x Chromium v2 chemistry barcode whitelist 10xv2_whitelist.txt

Assets 8

@sbooeshaghi sbooeshaghi released this Jun 10, 2019 · 7 commits to master since this release

This page provides the files needed to follow the getting started tutorial. The experiment is single-cell RNA-sequencing of mouse retinal cells SRR8599150 from this paper (https://doi.org/10.1016/j.immuni.2019.02.007).

Below are the:

  • Mouse transcriptome Mus_musculus.GRCm38.cdna.all.fa.gz
  • 10x Chromium v2 chemistry barcode whitelist 10xv2_whitelist.txt
  • Mouse transcripts to genes map transcripts_to_genes.txt
  • Read 1 fastq file SRR8599150_S1_L001_R1_001.fastq.gz
  • Read 2 fastq file SRR8599150_S1_L001_R2_001.fastq.gz
  • Expected files (corrected sorted BUS file, transcripts file, equivalence class file) output.correct.sort.bus.gz transcripts.txt.gz matrix.ec.gz
  • (extended explanation) Transcripts to genes utility t2g.py
Assets 11
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