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C: PI_HAT and Z-values for relationships (PLINK IBD calculation)
Efficient querying of genomic reference databases with gget
Integrating VDJ sequencing data with Seurat
Efficient querying of genomic reference databases with gget
Comment: how to fetch intron coordinates from transcriptome.gtf file ? is there any dir
A: Regression using genotype on expression of genes
A: How to use ALLPATH-LG assembler
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Answer: enrichr
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Use it through [gget enrichr][1] for super easy use! [1]: https://github.com/pachterlab/gget
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I believe it will try to make a linear correlation between the logs of the counts and your numerical colData. But it's hard to know withou…
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*[gget][1] seq* will return the nucleotide (option "gene") or amino acid (option "transcript") sequence and sequence length for any Ensembl…
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`$1`: https://www.gnu.org/software/gawk/manual/gawk.html#Fields `/^@/`: https://www.gnu.org/software/gawk/manual/gawk.html#Regexp-Usage `…
Comment: Filtration Of Reads With Length Lower Than 30 From Bam
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What is the "$1 ~ /^@/'" part for? Thanks!
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This dataset appears to have been released just a few days back (20th May) so it may not be fully ready to download from ENA. $ curl …
Comment: fastq.gz download error
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I m downloading it directly from ENA database Generated fastq files:FTP And the operating system is windows 11 It's not the error but …
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you'll need to provide some more (crucial) information here: how are you downloading it? (program? OS?) , what is the error you get? ... th…
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Comment: snakemake r script
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thank you so much
Comment: Third Quartile (Q3) for RNAseq data
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I read that it is a common approach to use ConsensusClusterPlus. I am trying to figure out, are TCGA data_mrna_seq_v2_rsem.txt data already…
Comment: how to fetch intron coordinates from transcriptome.gtf file ? is there any dir
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ATpoint
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Indeed, good catch!
Comment: how to fetch intron coordinates from transcriptome.gtf file ? is there any dir
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rpolicastro
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If you want the exact intron ranges you would need to modify the above but by looking per transcript. Doing it per gene would give you regi…
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There doesn't appear to be an appreciable separation between the two conditions for most of your samples. Instead of immediately going to S…
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