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Ayushi Agrawal a30ad109c8 Delete Intro_to_RNA-seq_data_analysis.zip		2022-07-13 16:07:33 -07:00
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Adapter_Sequence.fasta	First commit	2020-03-20 12:31:00 -07:00
all_steps.sh	Add files via upload	2022-03-09 14:46:25 -08:00
Bacteria_GATTACA_L001_R1_001.fastq	added example files RNA-Seq	2019-12-06 10:59:25 -08:00
rDNA.gtf	First commit	2020-03-20 12:31:00 -07:00
rDNA_sequence.fasta	added example files RNA-Seq	2019-12-06 10:59:25 -08:00
README.md	Update README.md	2022-07-13 16:07:03 -07:00
Single_read.fastq	added example files RNA-Seq	2019-12-06 10:59:25 -08:00
steps_on_wynton_session1.txt	Add files via upload	2022-03-11 12:39:00 -08:00
steps_on_wynton_session2.txt	Add files via upload	2022-03-21 11:46:20 -07:00
Workshop_2022_ Introduction to RNA-seq analysis - Michela and Ayushi .pptx	Add files via upload	2022-03-11 12:39:00 -08:00

intro-rna-seq

Single_read.fastq (fastq file with a single read to understand the fastq file format)
Bacteria_GATTACA_L001_R1_001.fastq (single-end small practice data with 100k reads for the demo in the workshop)
Adapter_Sequence.fasta (fasta file with adapter sequence for demo with cutadapt)
rDNA_sequence.fasta (fasta file with the reference genome sequence for demo with STAR aligner)
rDNA.gtf (GTF file with the annotations for demo with featureCounts)
all_steps_wynton.sh (shell script for running all the analysis steps on UCSF Wynton command-line interface using the practice data provided)
steps_on_wynton_session1.txt (text file with steps used on wynton to download/uplaod files, change directories etc in session 1)
steps_on_wynton_session2.txt (text file with steps used on wynton to download/uplaod files, change directories etc in session 2)
all_steps_docker_desktop.sh (shell script for running all the analysis steps using Docker Desktop and the practice data provided)