Related Issues (20)
- Document that --plot requires Graphviz
- Raw umi matrix? HOT 1
- Document the usage of the jaccard score
- Automatic detection of clone_id location throws error in some cases HOT 3
- Providing an input folder containing one BAM file per cell does not work HOT 1
- --min-length flag name and documentation is misleading
- Remove and flag doublets HOT 4
- Feature: Having Quality Control plots after running TREX HOT 1
- correct_clone_ids looks for CloneIDs throughout the whole dataset, should it be done per cell? HOT 1
- Update test? HOT 1
- Add a filtering option for excluding certain cloneIDs HOT 2
- Filter low-complexity cloneIDs HOT 2
- Tune low-complexity filtering
- Adjust minimum length if --per-cell is used HOT 1
- Filtering of short cloneIDs HOT 1
- Dealing with deleted bases in the cloneID
- Update CHANGE.md with links
- Add enhancing code of the run10x pos. argument to smartseq2/3 options
- Plotting clone graph has a division by zero problem
- Running TREX when samples has been divided into several FASTQ files HOT 4
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