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Problem with UpSetR result

intersections upsetr upset written 12 months ago by Rahil • 180 • updated 12 months ago by russhh ♦ 5.5k

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630

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Intersection 5 sets of genes and retrieval of specific subsets

genes R intersections written 2.8 years ago by lessismore • 930 • updated 2.8 years ago by noorpratap.singh • 300

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Recent Replies

C: How to get transcript ID and tpm from the gtf files of ballgown outputs? by _r_am ♦ 31k
Explore `awk` online. You'll need the `awk -v` option. And always use the `-F` option to specify ...
A: Demultiplexing with barcode at random location in sequence by GenoMax ♦ 93k
Using your example above. Get a few bases of the primer and add them to the `literal` with the ba...
C: GSVA / ssGSEA on single cell RNA cluster by igor ♦ 11k
> I looked at some sc packages that have this function implemented... Is one or any of this wa...
C: How to get transcript ID and tpm from the gtf files of ballgown outputs? by newbie • 90
this is what I don't know how to do. Can you please help me with an example. thanq I actually tr...
A: How to get transcript ID and tpm from the gtf files of ballgown outputs? by _r_am ♦ 31k
For each of the 150 files, assign an awk variable with the filename without the `.gtf` extension....
C: Read depth maxing out at about 8000 by ben83 • 0
Luckily, it appears to not be broken! Thanks!
C: Read depth maxing out at about 8000 by ben83 • 0
`-d 0` worked! Thanks! ![enter image description here][1] [1]: https://imgur.com/GQ4gcj7.jpg
C: align 230-ribonucleotide fragment 100 times by natasha.sernova • 3.8k
I found one probable nice answer by myself. https://www.biostars.org/p/400256/ and the tool is ...
C: Read depth maxing out at about 8000 by ben83 • 0
Aha!
A: Read depth maxing out at about 8000 by karl.stamm ♦ 3.9k
it's not an issue with your data, it's the tools. Counting depth costs memory, since the reads h...
A: Read depth maxing out at about 8000 by ATpoint ♦ 42k
Usage: samtools depth [options] in1.bam [in2.bam [...]] Options: (...) -d/-...
A: VariantsToTable in GATK does not produce the table of all SNPs in the vcf file by Christopher Walker • 50
This is answered in the description of the tool on the Broad's website: "By default, the tool on...

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