SAW华大时空软件使用
SAW华大时空软件使用
## FF https://en.stomics.tech/col1311/index.html
## https://en.stomics.tech/service/new-saw-operation-manual.html
saw count \
--id=Demo_Mouse_Brain \
--sn=C04042E3 \
--omics=transcriptomics \
--kit-version="Stereo-seq T FF V1.3" \
--sequencing-type="PE75_50+100" \
--chip-mask=/saw/datasets/mask/C04042E3.barcodeToPos.h5 \
--organism=mouse \
--tissue=brain \
--fastqs=/saw/datasets/fastqs \
--reference=/share/ref/Mus_musculus/Mus_musculus_index \
--image-tar=/saw/datasets/image/C04042E3_SC_20240930_201353_4.1.0.tar.gz
## FFPE https://stereotoolss-organization.gitbook.io/saw-user-manual-v8.0/tutorials/stereo-seq-ffpe
saw count \
--id=Demo_Mouse_Brain \
--sn=C04144D5 \
--omics=transcriptomics \
--kit-version="Stereo-seq N FFPE V1.0" \
--sequencing-type="PE75_25+59" \
--chip-mask=/saw/datasets/chip_mask/C04144D5.barcodeToPos.h5 \
--organism=mouse \
--tissue=brain \
--fastqs=/saw/datasets/fastqs \
--reference=/saw/datasets/reference/mouse_transcriptome \
--image-tar=/saw/datasets/image/C04144D5_SC_20240620_153.tar.gz
参考：https://www.bilibili.com/video/BV1VZjcznEdP?spm_id_from=333.788.videopod.sections&vd_source=6cc688872dbaeabe125ff35d0ca9e710
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