-
I did upgradeto SPAdes 3.15.2 but still running into an error:
`== Error == system call for: "['/home/apruthi/SPAdes-3.15.2-Linux/bin/spades-hammer', '/lustre/scratch/apruthi/spades/spades_filtered/c…
-
Hi Aaron,
Thank you for presenting such a wonderful software and experiment. We've got 93 datasets and 91 of them have been successfully processed by the `SingleCellLineage`. Only 2 samples failed …
-
I tried to run SPAdes on my Ubuntu installation that is Running on my windows subsystem for linux
`spades.py --test ` crashes with the Error
`== Error == system call for: "['/home/martin/spade…
-
Hi,
I have three sc-RNA seq (10X) datasets, all from different labs, all primary samples, 2 of them with 3 prime kit and 1 with 5 prime kit. What would be the best way to merge and filter these sa…
-
Appetite: ?
This question is limited to 10x scRNA/snRNA and Smart-Seq2-like assays.
Should the schema include a `counts` field? If so, how is it modeled per framework/assay? UMI counts from 10x for…
-
**Version info**
- bcbio version 1.1.5
**Additional context**
I have some targeted sequencing data where after de-multiplexing I have 3 fastq files per sample.
1. Sample_976.1.fastq.gz
2. Sa…
-
`== Error == system call for: "['/home/apruthi/anaconda3/envs/Spades/bin/spades-hammer', '/lustre/scratch/apruthi/spades/spades_filtered/corrected/configs/config.info']" finished abnormally, OS retur…
-
Here's a link to the spreadsheet for SLIDEseq metadata:
https://docs.google.com/spreadsheets/d/1KDBigt6Kqi7VRFb_uc3zkc17tedi4gz_oS0Y2T0fi08/edit?usp=sharing
It's much the same as RNAseq except for …
-
@cebriggs7135 : Can you get me an example of a sc-rna-seq submission? Thanks! Provide information here and then reassign to me.
-
I am following the notebook to understand the steps of single-cell RNA seq.
I had the same [issue #21](https://github.com/theislab/single-cell-tutorial/issues/21#) for the version of scanpy, so I …