User: sidrah.maryam

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Posts by sidrah.maryam

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Comment: C: sc-ATAC pro downstream analysis in R
... This protocol [scATAC-pro][1] [1]: https://github.com/tanlabcode/scATAC-pro#step-by-step-guide-to-running-scATAC-pro ...
written 13 days ago by sidrah.maryam0
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Comment: C: scATAC-pro command issue
... I followed this pipeline: https://github.com/tanlabcode/scATAC-pro#step-by-step-guide-to-running-scATAC-pro and in the third step of mapping and sorting the issue came up. While I monitored the memory available, not much of the RAM is being consumed while the execution of task, still the issue wa ...
written 13 days ago by sidrah.maryam0
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sc-ATAC pro downstream analysis in R
... During the downstream analysis of the data produced, available on: https://scatacpro-in-r.netlify.app/downstream_in_r In the step TF motif enrichment analysis, the second line : chromVar.obj = readRDS(paste0(down_dir, '/chromVar_obj.rds')) this error shows up "**Error in if (len > 1) paste(len, ...
gene R chip-seq sequencing written 13 days ago by sidrah.maryam0 • updated 2 days ago by Biostar ♦♦ 20
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Comment: C: scATAC-pro command issue
... Okay thank you so much for clarification. Actually I am doing it on server, and there is enough space available there. However, i will check it again. ...
written 14 days ago by sidrah.maryam0
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scATAC-pro command issue
... Hello everyone, I am trying to run scATAC-pro protocol, however, I am receiving the following error: Aligning ... Starting alignment ... [M::bwa_idx_load_from_disk] read 0 ALT contigs [M::process] read 3312862 sequences (160000086 bp)... /home/sidrah19220/IP/tools/scATAC-pro/scripts/mapping_bwa.sh: ...

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