Commit cb25d9f
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Merge pull request #171 from bnovak32/DEV_Amplicon_Illumina_NF_Conversion_original
Split NF_AmpIllumina workflow code into its own repo
- Merge in updates in master as well as latest SW_AmpIllumina 1.2.3 update
- Move NF_AmpIllumina code to GeneLab_AmpliconSeq_Workflow repo and add it back as a submodule
- update all relevant links
- update licenses to reflect change465 files changed
Lines changed: 68619 additions & 12165 deletions
File tree
- 3rd_Party_Licenses
- Amplicon_and_Metagenomics_3rd_Party_Software_Licenses
- Metagenomics_3rd_Party_Software_Licenses
- Amplicon/Illumina/Workflow_Documentation
- NF_AmpIllumina
- examples/runsheet
- workflow_code
- bin
- envs
- modules
- SW_AmpIllumina-B
- workflow_code
- scripts
- GeneLab_Reference_Annotations
- Pipeline_GL-DPPD-7110_Versions
- GL-DPPD-7110-A
- GL-DPPD-7110
- Workflow_Documentation
- GL_RefAnnotTable-A
- workflow_code
- bin
- config/software
- GL_RefAnnotTable
- workflow_code
- Licenses
- Metagenomics/Illumina
- Pipeline_GL-DPPD-7107_Versions
- Workflow_Documentation
- NF_MGIllumina
- examples/runsheet
- paired_end_dataset
- single_end_dataset
- workflow_code
- bin
- config
- envs
- modules
- SW_MGIllumina
- workflow_code
- scripts
- Methyl-Seq
- Pipeline_GL-DPPD-7113_Versions
- Workflow_Documentation
- isa_to_runsheet_plugins
- dp_tools__methylseq_dna
- dp_tools__methylseq_rna
- runsheet_specification
- paired_end_runsheet
- single_end_runsheet
- Microarray
- Affymetrix
- Pipeline_GL-DPPD-7114_Versions
- Workflow_Documentation
- NF_MAAffymetrix
- workflow_code
- bin
- dp_tools__affymetrix
- config
- executor
- software
- modules
- DUMP_META
- resources/usr/bin
- GENERATE_SOFTWARE_TABLE
- resources/usr/bin
- POST_PROCESSING/GENERATE_PROTOCOL
- resources/usr/bin
- tests
- assets
- Agilent_1-channel
- Pipeline_GL-DPPD-7112_Versions
- Workflow_Documentation
- NF_MAAgilent1ch
- examples/runsheet
- workflow_code
- bin
- dp_tools__agilent_1_channel
- config
- executor
- software
- modules
- GENERATE_SOFTWARE_TABLE
- resources/usr/bin
- POST_PROCESSING/GENERATE_PROTOCOL
- resources/usr/bin
- tests
- modules
- RNAseq
- Pipeline_GL-DPPD-7101_Versions
- Pipeline_GL-DPPD-7115_Versions
- Workflow_Documentation
- NF_RCP-F
- workflow_code
- bin
- dge_annotation_R_scripts
- dp_tools__NF_RCP
- config
- executor
- software
- modules
- DGE_BY_DESEQ2
- tests
- config
- modules
- DGE_BY_DESEQ2
- NF_RCP
- examples/runsheet
- paired_end_runsheet
- single_end_runsheet
- workflow_code
- assets
- bin
- dp_tools__NF_RCP_Bowtie2
- dp_tools__NF_RCP
- conf
- modules
- workflows
- images
- scRNAseq/10X_Chromium_3prime_Data/GeneLab_CellType_GeneMarkers/GL-DPPD-7111_GeneMarker_Files
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