haoshijie13
commented
1 day ago Hi there， First question, you can brige the sequencing files to the h5 files with the library name and filename prefix. Second question, all libraries are paired-sequencing data. You should choose “multiple pairs PE FASTQ data”. [cid:05258f31-e99d-4622-bb48-f3e2af838eda][cid:aa428584-b605-436b-914e-31b33cd3ed6f]
发件人: zyyy1234 @.> 发送时间: 2024年11月21日 17:14 收件人: haoshijie13/LISTA @.> 抄送: Subscribed @.***> 主题: [haoshijie13/LISTA] Questions related to data (Issue #1)
Dear author, I have read the article your team published in nature genetics. It's a really good study! Thank you for writing this detailed tutorial, which was very helpful for me to learn how to analyze Stereo-seq data. While trying to use the mapping function of SAW, I have two questions and would like to ask for your help: 1.Mapping requires FASTQ file (.fq.gz) and mask file (.h5). But the names of the FASTQ files provided by https://db.cngb.org/search/project/CNP0002310/ (e.g. DP8400016476BL) do not seem to correspond to the names of the Barcode2Positon files (.h5) provided by https://db.cngb.org/stomics/lista/download/ (e.g. DP8400015236BL). How can I find the correspondence between them? 2.Mapping requires bcPara file, and its parameter configuration is related to PE or SE type, including four possibilities: (1) single pair PE FASTQ data; (2) multiple pairs PE FASTQ data; (3) SE FASTQ which contains a barcode and is not split when writing FASTQ file; (4) SE FASTQ which contains multiple barcodes and is split when writing FASTQ file. What type does your data belong to? Or can you tell me where I should find this information? Looking forward to your reply, thank you very much!
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Dear author, I have read the article your team published in nature genetics. It's a really good study! Thank you for writing this detailed tutorial, which was very helpful for me to learn how to analyze Stereo-seq data. While trying to use the mapping function of SAW, I have two questions and would like to ask for your help: 1.Mapping requires FASTQ file (.fq.gz) and mask file (.h5). But the names of the FASTQ files provided by https://db.cngb.org/search/project/CNP0002310/ (e.g. DP8400016476BL) do not seem to correspond to the names of the Barcode2Positon files (.h5) provided by https://db.cngb.org/stomics/lista/download/ (e.g. DP8400015236BL). How can I find the correspondence between them? 2.Mapping requires bcPara file, and its parameter configuration is related to PE or SE type, including four possibilities: (1) single pair PE FASTQ data; (2) multiple pairs PE FASTQ data; (3) SE FASTQ which contains a barcode and is not split when writing FASTQ file; (4) SE FASTQ which contains multiple barcodes and is split when writing FASTQ file. What type does your data belong to? Or can you tell me where I should find this information? Looking forward to your reply, thank you very much!