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Hello,
I would like to use alevin but I'm not sure I actually can. We use a custom R1 barcode. 1-7 for the cell barcode and 8-16 for UMI.
Is is complicated to implement this?
Hoohm updated
6 years ago
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on linux, binary download of salmon: salmon-0.11.2-linux_x86_64
Trying to process some Drop-seq data. Command:
./salmon-0.11.2-linux_x86_64/bin/salmon alevin -l A -1 data/mSpT3_S2_L001_R…
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Hi,
I'm having issues getting alevin to work on dropseq data after following the tutorial for setting it up.
I am using the following command to run it:
salmon alevin -l ISR -1 SRR6054189.sra…
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**Is the bug primarily related to salmon (bulk mode) or alevin (single-cell mode)?**
related to salmon
**Describe the bug**
I've been using the Salmon-tximport-DESEq2 pipeline for quite a while n…
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**Is the bug primarily related to salmon (bulk mode) or alevin (single-cell mode)?**
alevin
**Describe the bug**
I am trying to use Alevin to quantify a single cell RNA-Seq 10x Genomics CHROMIUM …
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Event 10439 on splitsbrowser.org.uk has some odd behaviour on the Y-axis of the graph. The splits graph for the `ALEVIN FEMENINO` class shows decimals going off the left hand side of the graph.
Th…
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Hello,
salmon 0.11.1, on CentOS 7.
Tested with install from precompiled binaires, and from bioconda/conda 4.5.9
(1) salmon -h is fine, but salmon [command] -h takes lots of time, and ends up with…
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**Is the bug primarily related to salmon (bulk mode) or alevin (single-cell mode)?**
salmon
**Describe the bug**
I am getting a consistent segmentation fault 11 when running on the salmon tutor…
ghost updated
5 years ago
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Hi all. I have tried to run umi tools on 10x genomics (Chromium™ Single Cell 3’ v2) scRNA data and my read 1 is just like this:
@C00135:251:CB8E5ANXX:8:1101:1199:2066 1:N:0:GCATCTCC
CCTTCCCAGTCCAGG…
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Hello,
I am having a problem with an inconsistent segmentation fault: 11. Please see below.
**Is the bug primarily related to salmon (bulk mode) or alevin (single-cell mode)?**
I've only worked…