How to read .wig and .tab files into Rstudio?

Hi, all GSEXXXX files were downloaded from GEOdatasets, and then gunzip them. I got some .wig & .tab files, however, I cant read these files into Rstudio.

r chip-seq sequencing

• 3,151 views • link

updated 10.4 years ago by Devon Ryan

• written 10.4 years ago by wql_zcq •

1 answer

.tab files can be read with read.delim(). You can use the rtracklayer package for the wiggle files.

• 1 views • link

written 10.4 years ago by Devon Ryan

More posts like this

ONT direct RNA sequencing
written 2.4 years ago by Karina •

I have ONT direct RNA sequencing data consisting of 958 fastq.gz files per sample. I need to merge all of these files into a single …
How to open/work with wig or tdf files
written 3.8 years ago by Apex92 •

Hi all, I have downloaded ChIP-seq data from a publication in .wig format to look at the chromatin mark signals in IGV. The recommendation of …
How to fasterq-dump 10x genomics snATACseq fastq from SRA
written 4.9 years ago by rintsen.sherpa •

I am trying to retrieve fastq files from a 10x genomics snATACseq dataset on SRA. Each run should have 4 fastq files associated with it: …
Size difference using gunzip-cat-gzip and zcat
written 5.5 years ago by dazhudou1122

Hi Everyone, I have some fastq data downloaded from Illumina sequence hub. In these data, the sequences from one samples were split into four .gz …
Why are there regions missing from mappability tracks provided by UCSC?
written 6.0 years ago by jparker4 •

To get the mappabiity tracks, I downloaded them from the link provided by UCSC (http://hgdownload.soe.ucsc.edu/gbdb/hg38/hoffmanMappability/). The file used for the analysis was k100.Umap.MultiTrackMappability.bw. Once downloaded, …
How to deal with wig files separate bu watson and crick strand
written 7.6 years ago by Lila M

Hi everybody, I downloaded some wig files (GRO-seq data) that contains genomic read coverage (merging the two lanes of the same sample). Separate files were …
importing .SAM files into R (Rstudio)
written 9.6 years ago by Amirosein

Hi I have some .sam files as output of bowtie run. i want to read them into Rstudio. i searched for it but all i …
How to convert the data from .wig file to .table or .csv?
written 10.3 years ago by wql_zcq •

Hi, all I read a data from wig file with import.wig function of rtracklayer package. The class() of this data showed :"UCSCdata". I am failed …
Help, how to read wig files into R?
written 10.3 years ago by wql_zcq •

hi, all, I am a green hand. I downloaded some wig files from GEOdatasets and installed "rtracklayer" package. however I don't know which function can …
TCGA Wiggle files for MuSiC
written 11.3 years ago by TriS

<p>hi all</p> <p>I am working with somatic mutations in prostate, I downloaded the MAF files + clinical data from TCGA and I installed MuSiC to …