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Recent Replies
Comment: STAR aligner problem on local laptop
by
GenoMax
151k
In case this suggestion does not work try the solution posted here: https://github.com/alexdobin/STAR/issues/1265#issuecomment-1595135934
Comment: STAR aligner problem on local laptop
by
GenoMax
151k
> With conda there is no problem
Then why are you trying to compile locally. Are you expecting to get more (performance) out of a locally …
Comment: STAR aligner problem on local laptop
by
dsull
★
7.6k
OK, you need to compile add `CXXFLAGS_SIMD="-march=native"` at the end of your make command.
Comment: Anyone familiar with studies on computational neuroscience focused on consciousn
by
Bastien Hervé
6.3k
I think your question would better fit a biology forum like [biology.stackexchange][1]
[1]: https://biology.stackexchange.com/
Answer: European Variation Archive submission eva-sub-cli validation failure: "Sample na
by
Timothee
•
0
Just for the sake of anyone else having the same issue.
You need to annotate each of your files in the "Files" tab with an analysis alias…
Comment: STAR aligner problem on local laptop
by
Morris_Chair
▴
370
No alignment if I add --readFilesCommand cat in STAR.
The coding source comes from GitHUB
# 1. Install brew (http://brew.sh/)
# …
Comment: Trim CDS to ORF
by
i.sudbery
21k
You code looks fine to me, from a logical perspective, but without examples to try it on, I can't say why its not working. I wonder if its …
Comment: building snpeff database for plant
by
analyst
▴
60
Dear [lieven][1]
i renamed the headers in my cds fasta file:
now i don't get that CDS not found fatal error:
> Protein check: Citrus_clem…
Comment: STAR aligner problem on local laptop
by
dsull
★
7.6k
Hmm, one more suggestion: Add `--readFilesCommand cat` to your STAR command.
Also, show us how you're compiling from source (what commands…
Comment: RNASeq bulk transcriptomics analysis
by
rajdeepboral00
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The initial fastq after trimming had 107653608 reads
Comment: STAR aligner problem on local laptop
by
Morris_Chair
▴
370
Thanks for advice
here is the bam that I get
https://we.tl/t-nTZhKXezQ1
Comment: STAR aligner problem on local laptop
by
Morris_Chair
▴
370
With conda there is no problem but if I compile it from source it shows errors like this:
g++-14: error: unrecognized command-line opt…
Comment: RNA-seq analysis
by
Gordon Smyth
★
8.1k
OK now. Clearly the sequencing was unstranded. Just use featureCounts with default `strandSpecific=0`.
Comment: Multi-omic trajectory on CITE-Seq data
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ATpoint
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The UMAP must be based on something, typically a PCA or something like this. So why not running slingshot on either that PCA-like dimred, o…
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