ramdaq version 1.9.2

v1.9.2 (-r 1.9.2) [2022-02-17]

v1.9.2 Added

• Update the MultiQC version to 1.13

v1.9.2 Fixed

• Fixed an incorrect calculating paired-end reads counts in the FastQC process
• Fixed a bug in the report when using 1 sample
• Fixed an error in the R script when using integer samplename
• Changed default threshold for the minimum number of mapped reads filter

ramdaq version 1.9.1

v1.9.1 (-r 1.9.1) [2022-10-25]

v1.9.1 Added

• Support for genocode v41/vM30 annotations
• Add barplot expression of nucluear RNA genes

v1.9.1 Fixed

• Changed URL for downloading all external files
• Fixed an error in the FastQC for uncompressed fastq

ramdaq version 1.9

v1.9 (-r 1.9) [2022-07-20]

v1.9 Added

• Add barplot alligned genome rates of initial fastq reads

v1.9 Fixed

• Change setting testcase resource limits
• Fixed the unintended samples omit problem in low mapped reads bam QC processes
• Remove duplicate column from General statistics
• Changed bamtools filter option for create strand-specific bams

ramdaq version 1.8

v1.8 (-r 1.8) [2022-06-21]

v1.8 Fixed

• Fixed a problem with Fastq-mcf incorrect arguments that prevented fastq trimming from working properly

ramdaq version 1.7

v1.7 (-r 1.7) [2022-05-19]

v1.7 Added

• Support for genocode v39/vM28, v40/vM29 annotations

v1.7 Fixed

• Fixed an error in the RSEM-SIRV process when execute PE unstranded mode
• Extended "max time" of process-specific resource requirements
• Added hidden option to changed SIRV coverage process to off by default
• Added hidden option to avoid error when only short introns are detected in RSeQC

ramdaq version 1.6

v1.6 (-r 1.6) [2022-02-22]

• Pipeline has been re-implemented in Nextflow DSL2

v1.6 Added

• Add troubleshooting.md

v1.6 Fixed

• Fixed an error when running only one sample

ramdaq version 1.5

v1.5 (-r 1.5) [2021-12-20]

v1.5 Added

• Add surge.sh publish action to all CI test cases
• Support for genocode v38/vM27 annotations
• Update the docker image (some technical changes)

ramdaq version 1.4.1

v1.4.1 (-r 1.4.1) [2021-09-09]

v1.4.1 Fixed

• Fixed the problem that dimensional reduction plots are not displayed in the MulitiQC report

ramdaq version 1.4

v1.4 (-r 1.4) [2021-08-23]

v1.4 Added

• Added new rRNA quantification process and multiQC plot. More accurate % rRNA is achieved by mapping reads on rRNA sequences using HISAT2.
• Gzip-compressed output of merge_readcoverage_sirv

ramdaq version 1.3

v1.3 (-r 1.3) [2021-07-29]

v1.3 Added

• Added SIRV entropy bar plot as new SIRV QC plot
• Added columns to the General Statistics table for all bar plots
• Added the summary plot of featurecounts in MultiQC