Biostar Basic4cseq

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GenomicInteractions Basic4Cseq DNASeq GenomicFiles

14 months ago koushik • 0

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Basic4Cseq

updated 15 months ago by koushik • 0 • written 3.6 years ago by ta_awwad ▴ 10

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Basic4Cseq basic4cseq degenerate sites

6.2 years ago theodore.georgomanolis • 0

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Basic4Cseq

updated 6.7 years ago by Carolin Walter ▴ 10 • written 6.7 years ago by sinhashruti • 0

4 results • Page 1 of 1

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Comment: karyoploteR genome coverage plotting using BSgenome.TAIR10 by James W. MacDonald 61k

``` > download.file("https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/001/735/GCF_000001735.4_TAIR10.1/GCF_000001735.4_TAIR10.1_genomic.fna…

Answer: karyoploteR genome coverage plotting using BSgenome.TAIR10 by bernatgel ▴ 150

Hi If you only want to use it to plot with karyoploteR, you do not actually need a full BSgenome. You can simply create a GRanges objec…

Comment: karyoploteR genome coverage plotting using BSgenome.TAIR10 by James W. MacDonald 61k

Oh, right. We did have that package and now it seems to be gone? No idea why that happened. You might try building your own. If you have `B…

Comment: Questions about non-model organisms gene enrichment analysis by yuhang • 0

Thanks a lot for your reply! I am analyzing the RNAseq data of a non-model organism that doesn't have an annotation database, someone advi…

Comment: merge TPM values for same geneID by James W. MacDonald 61k

You will have to provide some data. Simply saying that you get something you don't want without showing what you got isn't helpful. Plus yo…

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Answer: karyoploteR genome coverage plotting using BSgenome.TAIR10

Comment: karyoploteR genome coverage plotting using BSgenome.TAIR10

Transcripts in TxDb.Hsapiens.UCSC.hg38.knownGene but not in ucsc genome brower

Answer: karyoploteR genome coverage plotting using BSgenome.TAIR10

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