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Remove analysis_group mention [CW-7387]

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Sarah Griffiths 2026-07-10 09:54:04 +00:00
parent d3d2a15efd
commit 66655043ea
3 changed files with 1 additions and 8 deletions
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1
CHANGELOG.md
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@ -9,6 +9,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
### Fixed ### Fixed
- Incorrect strand assignment when mapping cDNA reads is fixed by using minimap2 `-ub` instead of `-uf`. - Incorrect strand assignment when mapping cDNA reads is fixed by using minimap2 `-ub` instead of `-uf`.
- Remove mention of analysis_group and type from `README.md` as they are not relevant for this workflow.
## [v2.0.1] ## [v2.0.1]

4
README.md
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@ -200,10 +200,6 @@ sample aliases to be mapped to barcodes in multiplexed runs and is required for
`barcode02`, and the values must be unique. `barcode02`, and the values must be unique.
+ `alias` is the user-facing sample name, must be unique, must not begin + `alias` is the user-facing sample name, must be unique, must not begin
with the word `barcode` and may contain only letters, numbers, `.`, `_` or `-`. with the word `barcode` and may contain only letters, numbers, `.`, `_` or `-`.
+ If a `type` column is present, it must use one of:
`test_sample`, `positive_control`, `negative_control`, or
`no_template_control`.
+ If an `analysis_group` column is present, every row must have a value.
+ For `--de_analysis`, the sheet must also contain the primary condition + For `--de_analysis`, the sheet must also contain the primary condition
column (`condition` by default, overridable with `--condition_column`), column (`condition` by default, overridable with `--condition_column`),
plus any columns named in `--covariates`. plus any columns named in `--covariates`.

4
docs/06_pipeline_overview.md
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@ -39,10 +39,6 @@ sample aliases to be mapped to barcodes in multiplexed runs and is required for
`barcode02`, and the values must be unique. `barcode02`, and the values must be unique.
+ `alias` is the user-facing sample name, must be unique, must not begin + `alias` is the user-facing sample name, must be unique, must not begin
with the word `barcode` and may contain only letters, numbers, `.`, `_` or `-`. with the word `barcode` and may contain only letters, numbers, `.`, `_` or `-`.
+ If a `type` column is present, it must use one of:
`test_sample`, `positive_control`, `negative_control`, or
`no_template_control`.
+ If an `analysis_group` column is present, every row must have a value.
+ For `--de_analysis`, the sheet must also contain the primary condition + For `--de_analysis`, the sheet must also contain the primary condition
column (`condition` by default, overridable with `--condition_column`), column (`condition` by default, overridable with `--condition_column`),
plus any columns named in `--covariates`. plus any columns named in `--covariates`.