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Converting Galaxy wf to Nextflow wf #1

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Converting Galaxy wf to Nextflow wf #1

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Commits on Oct 25, 2024

  1. Update main.nf - adding wf process names

    @anilthanki
    anilthanki authored Oct 25, 2024
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  2. Update main.nf - populate Column_rearrange processes

    @anilthanki
    anilthanki authored Oct 25, 2024
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  3. Update main.nf - populate mergeGeneFiles

    @anilthanki
    anilthanki authored Oct 25, 2024
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  4. add nextflow.config for Slurm

    @pmb59
    pmb59 committed Oct 25, 2024
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  5. Update main.nf - moving input channels to workflow

    @anilthanki
    anilthanki authored Oct 25, 2024
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  6. Update main.nf - deleting redundant input channels

    @anilthanki
    anilthanki authored Oct 25, 2024
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  7. Update main.nf - adds wf step for mergeGeneFile

    @anilthanki
    anilthanki authored Oct 25, 2024
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  8. Update main.nf - adds workflow step for scanpy-read-10x

    @anilthanki
    anilthanki authored Oct 25, 2024
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  9. Update main.nf - fixing typo

    @anilthanki
    anilthanki authored Oct 25, 2024
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  10. Update main.nf - fixes input file names, process mergeGeneFiles and s… 

    …canpy_read_10x
    @anilthanki
    anilthanki authored Oct 25, 2024
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Commits on Oct 28, 2024

  1. removes duplicated process and renames a file

    @anilthanki
    anilthanki committed Oct 28, 2024
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  2. populate scanpy_filter_cells process

    @anilthanki
    anilthanki committed Oct 28, 2024
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  3. replaes anndata file name with var

    @anilthanki
    anilthanki committed Oct 28, 2024
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  4. Populate scanpy_filter_genes process

    @anilthanki
    anilthanki committed Oct 28, 2024
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  5. Adds missing quote

    @anilthanki
    anilthanki committed Oct 28, 2024
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  6. Populate normalise_data process

    @anilthanki
    anilthanki committed Oct 28, 2024
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  7. Populate normalise_data_internal process

    @anilthanki
    anilthanki committed Oct 28, 2024
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  8. Populate find_variable_genes process

    @anilthanki
    anilthanki committed Oct 28, 2024
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  9. Populate run_PCA process

    @anilthanki
    anilthanki committed Oct 28, 2024
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  10. Populate harmony_batch process

    @anilthanki
    anilthanki committed Oct 28, 2024
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  11. Populate neighbours process

    @anilthanki
    anilthanki committed Oct 28, 2024
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  12. Applies batch_varibale

    @anilthanki
    anilthanki committed Oct 28, 2024
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  13. Populate neighbours_for_umap process

    @anilthanki
    anilthanki committed Oct 28, 2024
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  14. removes random comment

    @anilthanki
    anilthanki committed Oct 28, 2024
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  15. Fixes lint

    @anilthanki
    anilthanki committed Oct 28, 2024
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  16. Fixes input for neighbours_for_umap

    @anilthanki
    anilthanki committed Oct 28, 2024
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  17. Populate run_tsne process and fixes typo in neighbours_for_umap

    @anilthanki
    anilthanki committed Oct 28, 2024
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  18. Populate run_UMAP process

    @anilthanki
    anilthanki committed Oct 28, 2024
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Commits on Oct 30, 2024

  1. renames normalise_internal_data and adds container tag

    @anilthanki
    anilthanki committed Oct 30, 2024
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Commits on Oct 31, 2024

  1. Update main.nf - fixing join command for needed output

    @anilthanki
    anilthanki authored Oct 31, 2024
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  2. Update main.nf - sylink genes.tsv locally

    @anilthanki
    anilthanki authored Oct 31, 2024
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  3. Update main.nf - adding container tag and commenting param in filter_… 

    …cell
    @anilthanki
    anilthanki authored Oct 31, 2024
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  4. Update nextflow.config - adding singularity param

    @anilthanki
    anilthanki authored Oct 31, 2024
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  5. Update main.nf - removing comment

    @anilthanki
    anilthanki authored Oct 31, 2024
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  6. Update main.nf - adds container info fixes batch_variable

    @anilthanki
    anilthanki authored Oct 31, 2024
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  7. Update main.nf - fixes batch_variable condition, adds pca_param in … 

    …neighbors_for_umap
    @anilthanki
    anilthanki authored Oct 31, 2024
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