Preview

evotools-nSPECTRa-46269cc
- .gitignore
  
  1.8 kB
- Dockerfile
  
  1.5 kB
- LICENSE
  
  1.1 kB
- README.md
  
  4.6 kB
- assets
  - K3_mutations.txt
    
    774 Bytes
  - K5_mutations.txt
    
    18.4 kB
  - K7_mutations.txt
    
    393.2 kB
  - VEPpriority
    
    1.2 kB
  - aaCode.txt
    
    1.8 kB
  - k3.mutcat
    
    1.2 kB
- bin
  - BED2ANCFASTA
    
    3.5 kB
  - BED2VBED
    
    1.8 kB
  - CHAIN2ANCFA_V2
    
    2.8 kB
  - COMBINE
    
    3.9 kB
  - COMBINE_SDM.R
    
    2.2 kB
  - CONSENSE
    
    3.4 kB
  - CORRECT_COUNTS
    
    4.2 kB
  - CombineMutyper
    
    1.1 kB
  - DROP_PREFIX
    
    841 Bytes
  - FASTA_REHEADER
    
    350 Bytes
  - FixMap
    
    505 Bytes
  - MAF2ANCFA
    
    8.9 kB
  - MAFSPLIT
    
    4.5 kB
  - SDMtoKsfs.R
    
    3.9 kB
  - coal2ne
    
    1.0 kB
  - compute_spectra
    
    1.7 kB
  - compute_spectra_class
    
    2.1 kB
  - getCounts3
    
    3.3 kB
  - getIndchange
    
    742 Bytes
  - getmasked.py
    
    115 Bytes
  - mafSTRANDER
    
    3.1 kB
  - makeHeatmap.R
    
    3.8 kB
  - makePopfile
    
    521 Bytes
  - makeRelateMaps
    
    874 Bytes
  - maskfasta
    
    262 Bytes
  - runMushi
    
    581 Bytes
  - script.sh
    
    3.5 kB
  - sdm
    
    15.7 kB
  - sdmCounts.R
    
    1.3 kB
  - sdmFilter
    
    2.0 kB
  - transpose
    
    625 Bytes
- conf
  - base.config
    
    2.6 kB
  - eddie.config
    
    1.6 kB
  - eddie_conda.config
    
    1.3 kB
  - nextflow.eddie.config
    
    2.1 kB
  - nextflow.local.config
    
    841 Bytes
  - params.config
    
    1.9 kB
  - stub.config
    
    3.6 kB
- envs
  - all_environment.yml
    
    806 Bytes
  - environment.yml
    
    433 Bytes
  - mushi-environment.yml
    
    159 Bytes
  - phast_environment.yml
    
    230 Bytes
  - r-environment.yml
    
    341 Bytes
  - sdm-environment.yml
    
    134 Bytes
  - vep-environment.yml
    
    121 Bytes
- imgs
  - Diagram.drawio
    
    4.5 kB
  - WorkflowComponents.png
    
    85.0 kB
  - pipeline_dat.svg
    
    39.5 kB
- include
  - process
    - annotate.nf
      
      2.9 kB
    - dependencies.nf
      
      1.9 kB
    - filtering.nf
      
      4.1 kB
    - gone.nf
      
      2.2 kB
    - hal2maf.nf
      
      1.8 kB
    - help.nf
      
      7.3 kB
    - ibd.nf
      
      1.6 kB
    - liftToAncestor.nf
      
      1.8 kB
    - maf2fasta.nf
      
      6.1 kB
    - mutyper.nf
      
      11.0 kB
    - phylop.nf
      
      9.8 kB
    - prerun.nf
      
      6.4 kB
    - relate.nf
      
      17.7 kB
    - relate_breed.nf
      
      9.1 kB
    - sdm.nf
      
      3.1 kB
  - workflow
    - ancestral.nf
      
      4.1 kB
    - gone.nf
      
      792 Bytes
    - ibd.nf
      
      1.1 kB
    - mutyper.nf
      
      2.3 kB
    - phylop.nf
      
      1.7 kB
    - relate.nf
      
      3.8 kB
    - sdm.nf
      
      1.6 kB
    - vcfpreprocess.nf
      
      4.3 kB
- legacy
  - main.nf
    
    9.2 kB
- main.nf
  
  7.1 kB
- nextflow.config
  
  2.9 kB
- singularity.def
  
  1.5 kB

evotools/nSPECTRa-v1.0.0.zip