0.3.0

Pipeline (MetaWorkflow)	Repository	Change/Feature
Illumina_alignment_GRCh38	main-pipelines	+ Disabled generation of BI/BD tags
PacBio_alignment_GRCh38	main-pipelines	No change since 0.1.0
ONT_alignment_GRCh38	main-pipelines	No change since 0.2.0
Hi-C_alignment_GRCh38	main-pipelines	No change since 0.1.0
RNA-seq_bulk_short_reads_GRCh38	main-pipelines	+ Updated RSEM and RNA-SeQC implementation to accept FR/fr-secondstrand libraries
RNA-seq_kinnex_long_reads_GRCh38	main-pipelines	No change since 0.2.0
Illumina_FASTQ_quality_metrics	qc-pipelines	No change since 0.1.0
short_reads_FASTQ_quality_metrics	qc-pipelines	No change since 0.1.0
long_reads_FASTQ_quality_metrics	qc-pipelines	No change since 0.2.0
sample_identity_check	qc-pipelines	No change since 0.2.0
cram_to_fastq_paired-end	shared-pipelines	No change since 0.1.0
bam_to_fastq_paired-end	shared-pipelines	No change since 0.0.1

0.2.0

Pipeline (MetaWorkflow)	Repository	Change/Feature
Illumina_alignment_GRCh38	main-pipelines	No change since 0.1.0
PacBio_alignment_GRCh38	main-pipelines	No change since 0.1.0
ONT_alignment_GRCh38	main-pipelines	+ Added VerifyBamID
Hi-C_alignment_GRCh38	main-pipelines	No change since 0.1.0
RNA-seq_bulk_short_reads_GRCh38	main-pipelines	+ GENCODE release updated (v45 -> v47) + Added tissues classifier + Added VerifyBamID
RNA-seq_kinnex_long_reads_GRCh38	main-pipelines	Pipeline released
Illumina_FASTQ_quality_metrics	qc-pipelines	No change since 0.1.0
short_reads_FASTQ_quality_metrics	qc-pipelines	No change since 0.1.0
long_reads_FASTQ_quality_metrics	qc-pipelines	+ NanoPlot version updated (1.42.0 -> 1.44.1)
sample_identity_check	qc-pipelines	Pipeline released
cram_to_fastq_paired-end	shared-pipelines	No change since 0.1.0
bam_to_fastq_paired-end	shared-pipelines	No change since 0.0.1

0.1.0

Pipeline (MetaWorkflow)	Repository	Change/Feature
Illumina_alignment_GRCh38	main-pipelines	+ Added local indel realignment + Added support for DRAGEN read names with UMI information + Added VerifyBamID + Added mosdepth
PacBio_alignment_GRCh38	main-pipelines	+ Added VerifyBamID + Added mosdepth
ONT_alignment_GRCh38	main-pipelines	+ Added mosdepth
Hi-C_alignment_GRCh38	main-pipelines	+ Added support for DRAGEN read names with UMI information + Added mosdepth
RNA-seq_bulk_short_reads_GRCh38	main-pipelines	Pipeline released
Illumina_FASTQ_quality_metrics	qc-pipelines	+ Added Kraken2
short_reads_FASTQ_quality_metrics	qc-pipelines	+ Added Kraken2
long_reads_FASTQ_quality_metrics	qc-pipelines	Pipeline released
cram_to_fastq_paired-end	shared-pipelines	Pipeline released
bam_to_fastq_paired-end	shared-pipelines	No change since 0.0.1

0.0.1

Pipeline (MetaWorkflow)	Repository	Change/Feature
Illumina_alignment_GRCh38	main-pipelines	Pipeline released
PacBio_alignment_GRCh38	main-pipelines	Pipeline released
ONT_alignment_GRCh38	main-pipelines	Pipeline released
Hi-C_alignment_GRCh38	main-pipelines	Pipeline released
Illumina_FASTQ_quality_metrics	qc-pipelines	Pipeline released
short_reads_FASTQ_quality_metrics	qc-pipelines	Pipeline released
bam_to_fastq_paired-end	shared-pipelines	Pipeline released