This page provides the files needed to create figure 3. The experiment is single-cell RNA-sequencing of single cells from whole retinas at 10 select developmental time points, ranging from prior to the onset of neurogenesis (E11) through terminal fate specification (P14), using the 10x Genomics Chromium 3′ v2 platform (https://doi.org/10.1016/j.neuron.2019.04.010).
Below are the:
cDNA & introns FASTA file cDNA_introns.correct_header.fa.gz
cDNA Transcripts list cDNA_transcripts.to_capture.txt.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
An index can be made by running
$ gunzip *
$ kallisto index -k 31 -i cDNA_introns.idx cDNA_introns.correct_header.fa