Merge pull request #61 from GoekeLab/update_readme

update release to include the RNA004 sample
GoekeLab · Apr 15, 2024 · de67801 · de67801
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diff --git a/README.md b/README.md
@@ -68,6 +68,12 @@ Chen, Y. _et al._ "A systematic benchmark of Nanopore long read RNA sequencing f
 
 **Release Note & Updates**
 
+Version Number: V0.5.1       
+Date: 2024-04-15
+Release of new sample     
+- new RNA004 sample of Hek293T (SGNex_Hek293T_directRNA_replicate5_run1)
+- pod5, fastq and transcriptome aligned bam files are included in this release 
+
 Version Number: V0.5.0       
 Date: 2024-03-08         
 Release of new samples      

diff --git a/docs/samples.tsv b/docs/samples.tsv
@@ -111,7 +111,7 @@ SGNex_H9_cDNA_replicate4_run4	1% SIRV-4	H9	cDNA	PRO002	SQK-PCB109	PromethION		gu
 SGNex_Hct116_cDNA_replicate3_run5		Hct116	cDNA	PRO002	SQK-PCS110	PromethION		guppy-3.2.10-GIS	20210515		https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/fast5/SGNex_Hct116_cDNA_replicate3_run5/SGNex_Hct116_cDNA_replicate3_run5.tar.gz	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/fastq/SGNex_Hct116_cDNA_replicate3_run5/SGNex_Hct116_cDNA_replicate3_run5.fastq.gz	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/bam/genome/SGNex_Hct116_cDNA_replicate3_run5/SGNex_Hct116_cDNA_replicate3_run5.bam	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/bam/transcriptome/SGNex_Hct116_cDNA_replicate3_run5/SGNex_Hct116_cDNA_replicate3_run5.bam	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/genome_browser_data/bigbed/SGNex_Hct116_cDNA_replicate3_run5.bigbed	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/genome_browser_data/bigwig/SGNex_Hct116_cDNA_replicate3_run5.bigwig	NA	ftp.sra.ebi.ac.uk/vol1/fastq/ERR121/043/ERR12185743/ERR12185743.fastq.gz	https://sg-nex-data-blow5.s3.ap-southeast-1.amazonaws.com/SGNex_Hct116_cDNA_replicate3_run5/SGNex_Hct116_cDNA_replicate3_run5.blow5	https://sg-nex-data-blow5.s3.ap-southeast-1.amazonaws.com/SGNex_Hct116_cDNA_replicate3_run5/SGNex_Hct116_cDNA_replicate3_run5.blow5.idx
 SGNex_Hct116_cDNA_replicate4_run4		Hct116	cDNA	PRO002	SQK-PCS110	PromethION		guppy-3.2.10-GIS	20210515		https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/fast5/SGNex_Hct116_cDNA_replicate4_run4/SGNex_Hct116_cDNA_replicate4_run4.tar.gz	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/fastq/SGNex_Hct116_cDNA_replicate4_run4/SGNex_Hct116_cDNA_replicate4_run4.fastq.gz	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/bam/genome/SGNex_Hct116_cDNA_replicate4_run4/SGNex_Hct116_cDNA_replicate4_run4.bam	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/bam/transcriptome/SGNex_Hct116_cDNA_replicate4_run4/SGNex_Hct116_cDNA_replicate4_run4.bam	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/genome_browser_data/bigbed/SGNex_Hct116_cDNA_replicate4_run4.bigbed	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/genome_browser_data/bigwig/SGNex_Hct116_cDNA_replicate4_run4.bigwig	NA	ftp.sra.ebi.ac.uk/vol1/fastq/ERR122/067/ERR12257467/ERR12257467.fastq.gz	https://sg-nex-data-blow5.s3.ap-southeast-1.amazonaws.com/SGNex_Hct116_cDNA_replicate4_run4/SGNex_Hct116_cDNA_replicate4_run4.blow5	https://sg-nex-data-blow5.s3.ap-southeast-1.amazonaws.com/SGNex_Hct116_cDNA_replicate4_run4/SGNex_Hct116_cDNA_replicate4_run4.blow5.idx
 SGNex_Hct116_cDNA_replicate4_run5		Hct116	cDNA	MIN106D	SQK-PCS111	GridION		guppy-5.1.13-SUP	20220311		https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/fast5/SGNex_Hct116_cDNA_replicate4_run5/SGNex_Hct116_cDNA_replicate4_run5.tar.gz	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/fastq/SGNex_Hct116_cDNA_replicate4_run5/SGNex_Hct116_cDNA_replicate4_run5.fastq.gz	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/bam/genome/SGNex_Hct116_cDNA_replicate4_run5/SGNex_Hct116_cDNA_replicate4_run5.bam	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/bam/transcriptome/SGNex_Hct116_cDNA_replicate4_run5/SGNex_Hct116_cDNA_replicate4_run5.bam	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/genome_browser_data/bigbed/SGNex_Hct116_cDNA_replicate4_run5.bigbed	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/genome_browser_data/bigwig/SGNex_Hct116_cDNA_replicate4_run5.bigwig	ftp.sra.ebi.ac.uk/vol1/run/ERR125/ERR12530760/SGNex_Hct116_cDNA_replicate4_run5.tar.gz	ftp.sra.ebi.ac.uk/vol1/fastq/ERR121/044/ERR12187044/ERR12187044.fastq.gz	https://sg-nex-data-blow5.s3.ap-southeast-1.amazonaws.com/SGNex_Hct116_cDNA_replicate4_run5/SGNex_Hct116_cDNA_replicate4_run5.blow5	https://sg-nex-data-blow5.s3.ap-southeast-1.amazonaws.com/SGNex_Hct116_cDNA_replicate4_run5/SGNex_Hct116_cDNA_replicate4_run5.blow5.idx
-																				
+SGNex_Hek293T_directRNA_replicate5_run1		Hek293T	directRNA	PRO002	SQK-RNA004	GridION		dorado-0.2.4	20230425		https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/fast5/SGNex_Hek293T_directRNA_replicate5_run1/SGNex_Hek293T_directRNA_replicate5_run1.pod5	https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/fastq/SGNex_Hek293T_directRNA_replicate5_run1/SGNex_Hek293T_directRNA_replicate5_run1.fastq.gz		https://sg-nex-data.s3.ap-southeast-1.amazonaws.com/data/sequencing_data_ont/bam/transcriptome/SGNex_Hek293T_directRNA_replicate5_run1/SGNex_Hek293T_directRNA_replicate5_run1.bam