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Minimap2/Samtools is throwing an error from reads with append cell barcode/UMI (generated from `match_cell_barcode`).
```
[E::sam_parse1] query name too long
[W::sam_read1_sam] Parse error at lin…
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Hello, I hope you can guide me. Download Fastqs from SRA (SRR9843421), it is sequence data from Microwell-seq.
Use
then I used the Drop-seq protocol you posted. The DGE matrix with the following co…
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Hi @bmill3r ,
Thank you for developing this tool. Deconvolution and annotation have worked well for me thus far. I am now looking to attempt to do CNV analysis on the deconvolved cell types (I have…
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I would like to ask how Trust4 can directly analyze paired-end .fastq format data from the 10X Genomics platform for single-cell analysis, instead of analyzing BAM format data. Can you provide support…
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In the current version 2.1.2 of the scATAC analysis pipeline, some samples encounter SIGNALS errors during merging due to high memory usage.
**This issue will be optimized in the next version.**
T…
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Dear Velocyto-experts,
I am trying to perform RNA velocity analysis of 10x single cell data (cite seq) and during my velocyto executions I noticed warnings that the chromosome IDs in my bam files a…
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Good morning,
We have been using the Clonmapper protocol and we are at the stage of testing our barcode diversity after electroporation. We did a 138M reads sequencing and unfortunately our diversi…
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### Description of feature
I am currently looking into using scrnaseq for a clinical trial. In our setup we have GEX, FB, and VDJ data for several patients which are hashed using Totalseq-C. Curren…
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Hello,
I am trying to subset my bam file for each barcode. I have around 20k cells and each of their barcode is in a directory. I have been using the code below to execute subset-bam. It takes arou…
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Hello. I am currently trying to realign the raw data from this paper using the kallisto-bustools pipeline. I am able to specify custom technology by demarcating which read and the start and end positi…