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preprocess.json example and help with errors on HPC

Status: Open.

#161 In broadinstitute/epi-SHARE-seq-pipeline;

· NayeliGutierrez opened on Oct 14, 2024

Duplication rate for RNA

Status: Open.

#160 In broadinstitute/epi-SHARE-seq-pipeline;

· ruochiz opened on Oct 4, 2024

exposing STARSolo parameter --limitBAMsortRAM for /dev and future branches

Status: Open.

#159 In broadinstitute/epi-SHARE-seq-pipeline;

· ruochiz opened on Oct 4, 2024

GX vs gx tag in STARsolo

bugSomething isn't workingSomething isn't working

enhancementNew feature or requestNew feature or request

Status: Open.

#125 In broadinstitute/epi-SHARE-seq-pipeline;

· emattei opened on Jul 5, 2023

pretty plate QC

Status: Open.

#124 In broadinstitute/epi-SHARE-seq-pipeline;

· nchernia opened on Jun 22, 2023

Empty pkr for ATAC remove _

Status: Open.

#117 In broadinstitute/epi-SHARE-seq-pipeline;

· emattei opened on May 23, 2023

Seurat ATAC & RNA UMAP integration

Status: Open.

#116 In broadinstitute/epi-SHARE-seq-pipeline;

· mei-knudson opened on May 18, 2023

Multimappers flags. What is the best way to handle them?

Status: Open.

#112 In broadinstitute/epi-SHARE-seq-pipeline;

· emattei opened on May 4, 2023

ddqc

V2

Status: Open.

#99 In broadinstitute/epi-SHARE-seq-pipeline;

· sidwekhande opened on Apr 19, 2023

Requester pay google bucket

Status: Open.

#97 In broadinstitute/epi-SHARE-seq-pipeline;

· emattei opened on Apr 19, 2023

Using method in Juliana's paper identify variable genes

Status: Open.

#96 In broadinstitute/epi-SHARE-seq-pipeline;

· emattei opened on Apr 19, 2023

FastqQC in the pipeline?

V2

Status: Open.

#95 In broadinstitute/epi-SHARE-seq-pipeline;

· emattei opened on Apr 19, 2023