Commit 677e4244 authored by yy1533's avatar yy1533
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📖 updating readme

parent 8842ecb4
......@@ -60,8 +60,8 @@ to allow assessment on reproducibility or possible batch effect.
## Step-1: Define Experiment Table
Run `new-experiment-table` command to initiate table file of the experiment
design.
Run `new-experiment-table` command to initiate table file (space/tab separated
file) of the experiment design.
```bash
new-experiment-table -o /path/to/wonderful_experiment_table.txt
......@@ -71,7 +71,7 @@ Fill information into the generated experiment table file.
:warning: Note: Column names cannot be changes at all.
:warning: Note: Each element cannot contain any space.
:warning: Note: Each slot cannot contain any space.
The content of experiment table in this example could be:
......@@ -87,16 +87,24 @@ The content of experiment table in this example could be:
Each row records one pair of FASTQ reads.
To ease the pain of manually specifying `CELL_BARCODES_INDEX`, `celseq2`
recognizes human inputs in various way. Examples of specifications of barcodes
recognizes human inputs in various way. Examples of specification of barcodes
indexed from 1 to 8 that present in experiment-1 are listed and are all allowed.
1. `1-8`: most straightforward way.
1. `1-8`: the most straightforward way.
2. `1,8,2-7` or `1,8,7-2`: combination of individual and range assignment.
3. `8,1,7-2,6`: redundancy is tolerant.
## Step-2: Specify Configuration of Workflow
Run `new-configuration-file` command to initiate configuration file
(YAML format) of CEL-Seq2.
```
new-configuration-file -o /path/to/wonderful_CEL-Seq2_config.yaml
```
## Step-3: Running `celseq2`
......
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