Clean up

Signed-off-by: Chaichontat Sriworarat <[email protected]>
gofflab · Oct 17, 2022 · 4891276 · 4891276
1 parent 26b3083
commit 4891276
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Showing 4 changed files with 522 additions and 306 deletions.
diff --git a/.prettierrc b/.prettierrc
@@ -0,0 +1,3 @@
+{
+  "proseWrap": "always"
+}
diff --git a/modules/module_7/notebooks/10x_10k_preprocessing.sh b/modules/module_7/notebooks/10x_10k_preprocessing.sh
@@ -1,5 +1,5 @@
 #!/bin/bash
-#Setup environment
+# Setup environment
 conda activate kallistobus
 
 # Fetch data
@@ -17,10 +17,7 @@ cd ..
 mkdir kallisto
 cd kallisto
 kb count --h5ad -i ../index/index.idx -g ../index/t2g.txt -x 10xv3 -o output --filter bustools -t 2 \
-../neuron_10k_v3_fastqs/neuron_10k_v3_S1_L001_R1_001.fastq.gz \
-../neuron_10k_v3_fastqs/neuron_10k_v3_S1_L001_R2_001.fastq.gz \
-../neuron_10k_v3_fastqs/neuron_10k_v3_S1_L002_R1_001.fastq.gz \
-../neuron_10k_v3_fastqs/neuron_10k_v3_S1_L002_R2_001.fastq.gz
-
-
-
+    ../neuron_10k_v3_fastqs/neuron_10k_v3_S1_L001_R1_001.fastq.gz \
+    ../neuron_10k_v3_fastqs/neuron_10k_v3_S1_L001_R2_001.fastq.gz \
+    ../neuron_10k_v3_fastqs/neuron_10k_v3_S1_L002_R1_001.fastq.gz \
+    ../neuron_10k_v3_fastqs/neuron_10k_v3_S1_L002_R2_001.fastq.gz