Comments (4)
Hi @NaomiHuntley ,
.gz
file is a compressed file, so head
will not work. You can use zcat
to read the compressed binary file and then use head
to print out the first few lines. Can you try zcat [file_name] | head
instead?
from scdrs.
Hi @martinjzhang oh wow, what a noob mistake! Thank you for that information.
One other issue I am running in to is that since each of my traits is in a separate file, I am running the compute-score command on a loop. However, my output is only one file. Does the command automatically concatenate all the results? Or should I have a separate output file for each of my input traits.
Thank you!
from scdrs.
Hi @NaomiHuntley ,
I think you named all your traits ZSTAT
in the .gs
file. Since scdrs
specifies output file names using the trait name (which is ZSTATS
for all your traits), all your traits may have the same output file names. So I think the new output results overwrote the old ones.
from scdrs.
That was the issue! Thank you
from scdrs.
Related Issues (20)
- custom gene set ? HOT 2
- The graphs from a single result and multiple results are inconsistent HOT 13
- Subsetting cells for downstream analysis. HOT 1
- TypeError: '<' not supported between instances of 'str' and 'float' HOT 3
- About compute-score
- Is it reasonable to use human' geneset on mouse scRNAseq data? HOT 2
- TypeError: plot_group_stats() got an unexpected keyword argument 'plot_kws' HOT 16
- trait=z_score: skipped due to small size (n_gene=5, sys_time=116.1s) HOT 1
- AssertionError when running quick test after installation HOT 7
- The 'n_fdr_0.2' number of all group is 0 HOT 7
- Interpreting scDRS score when comparing cell-type subclusters HOT 1
- Using geneset from SMR result HOT 1
- ValueError: too many values to unpack (expected 2) HOT 8
- Converting GWAS catalog .tsv file to gene set HOT 3
- Preprocessing: killed running scdrs compute-score HOT 4
- tcell.facs.annot.h5ad without GENE name HOT 2
- use scdrs in a tissue seemlingly unrelated with the disease HOT 4
- fail to get the "1000 top associated genes" based on MAGMA HOT 2
- Correcting cell-level p-values for multiple comparisons? HOT 3
- Questions about matched gene sets HOT 2
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from scdrs.