Release v0.1.3

Minor release to correct a typo in a container URL

Workflows Added:

N/A

Subworkflows Added:

N/A

Modules Added:

N/A

Workflows Changes:

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Subworkflows Changed:

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Modules Changed:

1. modules/utility_modules/read_groups.nf

Release v0.1.2

Modified behavior of the RNA-seq --strandedness parameter to skip strand detection
if --strandedness is set to 'non_stranded', 'forward_stranded', or 'reverse_stranded'
and just accept those values instead

Workflows Added:

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Subworkflows Added:

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Modules Added:

N/A

Workflows Changes:

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Subworkflows Changed:

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Modules Changed:

1. modules/python/python_check_strandedness.nf

Release v0.1.1

Minor release to increase memory allocation to RSEM for RNA-seq workflows

Workflows Added:

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Subworkflows Added:

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Modules Added:

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Workflow Changes:

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Subworkflow Changes:

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Module Changes:

1. rsem/rsem_calculate_expression.nf

Release v0.1.0

Workflows Added:

1. RNA-seq
2. Microbial RNA-seq
3. Whole-genome sequence variant calling

Subworkflows Added:

1. RNA-seq index generation
2. Microbial RNA-seq index generation
3. WGS index generation

Modules Added:

1. bcftools/bcftools_concat.nf
2. bcftools/bcftools_mpileup_interval.nf
3. bwa/bwa_index.nf
4. bwa/bwa_mem.nf
5. fastp/fastp.nf
6. fastqc/fastqc.nf
7. gatk/gatk_indexfeaturefile.nf
8. gatk/gatk_variantfiltration.nf
9. gatk/gatk_variantstotable.nf
10. kallisto/kallisto_index.nf
11. multiqc/multiqc.nf
12. picard/picard_addorreplacereadgroups.nf
13. picard/picard_collectalignmentmetrics.nf
14. picard/picard_collectrnaseqmetrics.nf
15. picard/picard_collectwgsmetrics.nf
16. picard/picard_createsequencedictionary.nf
17. picard/picard_markduplicates.nf
18. picard/picard_reordersam.nf
19. picard/picard_sortsam.nf
20. python/python_check_strandedness.nf
21. rsem/rsem_calculate_expression.nf
22. rsem/rsem_preparereference.nf
23. samtools/samtools_faidx.nf
24. ucsc_gtftogenepred.nf
25. utility_modules/aggregate_stats_rna.nf
26. utility_modules/bundle_bams.nf
27. utility_modules/concatenate_reads_pe.nf
28. utility_modules/concatenate_reads_se.nf
29. utility_modules/generate_rrna_intervals.nf
30. utility_modules/get_contig_names.nf
31. utility_modules/get_read_length.nf
32. utility_modules/merge_rsem_counts.nf
33. utility_modules/parse_rnasseq_indices.nf
34. utility_modules/read_groups.nf

Workflow Changes:

N/A

Subworkflow Changes:

N/A

Module Changes:

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