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Showing top results for tag: Bedgraph • reset
0
votes
0
replies
88
views
Using MACS2 parameters
linux galaxy bedgraph peak_calling macs2
4 weeks ago by Nishat • 0
1
vote
6
replies
304
views
Merge regions in bedtools genomecov/bedgraph file
bedgraph genomecov
5 weeks ago by eoneill627 ▴ 10
1
vote
2
replies
142
views
Merge regions in bedgraph file
bedgraph
8 weeks ago by eoneill627 ▴ 10
1
vote
4
replies
383
views
bgr files: change chromosome annotation
sed bedgraph expressions awk
updated 3 months ago by 54k • written 3 months ago by • 0
3
votes
4
replies
404
views
Convert per base bedgraph to Bed format
Bedgraph perbase Bed Bedtools
updated 5 months ago by 33k • written 5 months ago by • 0
1
vote
7
replies
697
views
How to merge and average BedGraph files
bedtools terminal bg bedgraph
5 months ago by a_bis ▴ 10
0
votes
0
replies
252
views
converting bedgraph to Bigwig by HOMER
HOMER bedGraph BigWig bioinformatics ChIP-seq
6 months ago by saha.shagnik • 0
2
votes
1
reply
289
views
bedGraphToBigWig error : Expecting at least 3 words line 1 of chrom.sizes. got 2
bigwig bedGraph
updated 6 months ago by 54k • written 6 months ago by ▴ 60
2
votes
2
replies
277
views
In methylation sequencing, what does BedGraph value stand for?
bedgraph methylaion methylation sequencing bismark
8 months ago by kwanghoon ▴ 20
0
votes
2
replies
910
views
bedGraphToBigWig: error while loading shared libraries: libpng12.so.0: cannot open shared object file: No such file or directory
bigwig software error bedgraph
updated 8 months ago by 138k • written 8 months ago by ▴ 40
0
votes
3
replies
385
views
How to create a file with annotation track distribution over 1mb bin across a genome
genome annotation-track bed bedgraph visualization
updated 11 months ago by 13k • written 11 months ago by • 0
2
votes
4
replies
425
views
bedgraph.sorted or wig to .cov files?
coverage bedgraph.sorted bedgraph wig
updated 14 months ago by ▴ 500 • written 14 months ago by ▴ 10
0
votes
1
reply
280
views
How to use pybedtools bedgraph to bigwig using Ensembl genomes
pybedtools bigwig.py ensembl bedgraph python2
15 months ago by frymor2 ▴ 10
6
votes
3
replies
366
views
What are these files?
geo bed bedgraph rnaseq
updated 15 months ago by ★ 11k • written 15 months ago by ▴ 10
0
votes
1
reply
874
views
EPIC methylation manifest GRch38 query
methylation coordinates EPIC bedgraph CpG
15 months ago by prasundutta87 ▴ 570
1
vote
4
replies
752
views
Calculate correlations between ChipSeq data sets
chipseq correlation peaks bedgraph macs2
updated 18 months ago by ★ 1.2k • written 18 months ago by ★ 1.6k
4
votes
7
replies
452
views
sorting for bedtools genomecov doesn't work properly
bedtools sort bedpe RNA-Seq bedgraph
updated 18 months ago by 77k • written 18 months ago by ★ 1.6k
1
vote
10
replies
1.2k
views
Plotting Bedgraph with multiple chromosome
bedgraph Sushi R
19 months ago by jaqx008 ▴ 90
3
votes
2
replies
904
views
variableStep vs fixedStep for range formats
ucsc formats bigwig bedgraph range
updated 19 months ago by 20 • written 3.0 years ago by ▴ 330
3
votes
5
replies
1.2k
views
GEO database - how to use their bedgraph files
RNA-Seq bedgraph
updated 23 months ago by ▴ 500 • written 23 months ago by ▴ 10
1
vote
5
replies
1.9k
views
Obtain ChIPseq peaks from a bedgraph file with continuous regions
ChIP-Seq peaks calling HOMER MACS2 bedGraph
updated 2.2 years ago by 20 • written 2.4 years ago by • 0
0
votes
0
replies
575
views
Overlapping Bedgraph - Microarray ChIP to BigWig for Clustering analysis
Bedgraph microarray heatmap ChIP bigwig
2.2 years ago by Hushus ▴ 20
1
vote
8
replies
5.5k
views
Overlapping regions in a BedGraph file
bedgraph GRO-Seq ChIP-Seq deeptools
updated 2.3 years ago by ▴ 180 • written 5.7 years ago by ▴ 90
5
votes
4
replies
2.6k
views
Generating a bedgraph from a scored bed file
ChIP-Seq genome bedtools bedgraph coverage
updated 2.5 years ago by 20 • written 6.5 years ago by ▴ 40
0
votes
3
replies
1.2k
views
Seqmonk: Bedgraph as input ? (EPIC methylation array data)
seqmonk Bedgraph methylation probe design
updated 2.6 years ago by 8.0k • written 2.7 years ago by ▴ 280
2
votes
3
replies
1.0k
views
Transform Bedgraph counts into Gene Counts (DESeq2 input)
Bedgraph Counts Gene Counts
updated 2.6 years ago by ▴ 20 • written 2.6 years ago by ▴ 90
4
votes
6
replies
2.1k
views
Visualizing CNV data based from bed or bedgraph format
CNV IGV R bed bedgraph
2.6 years ago by sm.hashemin ▴ 90
1
vote
3
replies
859
views
bedgraph file format in IGV: good for observing CNV ?
igv cnv bedgraph
2.8 years ago by Pin.Bioinf ▴ 300
1
vote
2
replies
1.4k
views
Reformating bedGraph files in shell script
bedGraph bigWig ucsc chr awk
updated 2.9 years ago by 20 • written 3.0 years ago by ▴ 330
7
votes
10
replies
2.3k
views
BigWig library for Java
Java BigWig BedGraph
updated 2.9 years ago by ▴ 30 • written 6.9 years ago by ▴ 790
5
votes
8
replies
2.0k
views
Output bedGraph from genomeCoverageBed is missing "chr"
RNA-Seq ucsc genomeCoverageBed bedGraph bigWig
updated 3.0 years ago by 34k • written 3.0 years ago by ▴ 330
7
votes
8
replies
1.7k
views
Stranded RNA-seq data visualization in UCSC
RNA-Seq stranded visualization bedgraph
updated 3.1 years ago by 4.9k • written 3.1 years ago by ▴ 550
0
votes
1
reply
1.2k
views
"olambda_treat_afterfiting_all" output file from MACS
MACS bedgraph output
updated 3.1 years ago by 20 • written 6.8 years ago by ▴ 110
0
votes
1
reply
500
views
What should you do if you don't know the wig file is based on GRCH37 or GRCH38?
wig bedgraph
3.1 years ago by Shicheng Guo ★ 8.8k
1
vote
8
replies
1.5k
views
bedGraph compress tools
bedtools bedGraph
3.1 years ago by marina.v.yurieva ▴ 550
1
vote
5
replies
1.7k
views
How to extrach gene names and peaks from BedGraph or BigWig files
ChIP-Seq bedgraph bigwig peak
updated 3.4 years ago by 100k • written 3.4 years ago by ▴ 110
5
votes
8
replies
4.6k
views
plot a bedgraph
bed bedgraph plot RNA-Seq
3.5 years ago by sacha ★ 2.1k
0
votes
0
replies
856
views
genome-wide gene occupancy profiles
ChIP-Seq occupany profile bedgraph
4.0 years ago by Assa Yeroslaviz ★ 1.6k
5
votes
6
replies
2.0k
views
How to merge bedGraph records which are next to each other and have the same score?
bedGraph
updated 4.1 years ago by 11k • written 4.1 years ago by ★ 3.2k
2
votes
2
replies
1.6k
views
Effectively search for positions in large bedgraph files using python (or other language if needed)
bedgraph python
updated 4.2 years ago by 33k • written 4.2 years ago by ▴ 570
4
votes
3
replies
2.9k
views
Visualising BedGraph files on UCSC [custom tracks]
visualisation bedgraph ucsc genome
updated 4.3 years ago by 2.9k • written 4.3 years ago by ▴ 180
3
votes
3
replies
6.8k
views
Difference between 'bedgraph' and 'bw' files
bedgraph bw
updated 4.6 years ago by 12k • written 4.6 years ago by ▴ 540
0
votes
1
reply
2.6k
views
How to create a bedGraph file for broadPeak peak caller?
broadPeak bedGraph ChIP-Seq peak calling
updated 4.8 years ago by • 0 • written 5.7 years ago by ▴ 10
0
votes
3
replies
2.0k
views
Merge hundreds bedgraph files with unionbedg in one bash line
bedgraph merge xargs bash
4.9 years ago by Shicheng Guo ★ 8.8k
0
votes
4
replies
2.1k
views
Relationship of bedGraph to wig.
ChIP-Seq bedGraph wig wiggle
updated 5.0 years ago by 100k • written 5.0 years ago by ▴ 160
1
vote
2
replies
1.4k
views
Is there any way to determine whether my sequenced data uses 0- or 1-based coordinates?
sequencing coordinates genome bed bedgraph
updated 5.4 years ago by 33k • written 5.4 years ago by ▴ 150
3
votes
3
replies
1.6k
views
How do I replace a value used in script with a range of values in a file?
Bioinformatics AWK bedgraph
updated 5.5 years ago by ▴ 80 • written 5.5 years ago by ▴ 70
0
votes
1
reply
1.3k
views
Two UCSC bedgraph tracks next to each other
UCSC Custom Track bedgraph
updated 5.5 years ago by ★ 2.3k • written 6.1 years ago by • 0
1
vote
4
replies
1.3k
views
Is there a simple way to get the max coverage of a bedgraph file in python?
python bedgraph
updated 5.5 years ago by 33k • written 5.5 years ago by ▴ 560
13
votes
19
replies
3.3k
views
Sum column until a certain value is reached then print that line
awk bioinformatics bedgraph
updated 5.5 years ago by 13k • written 5.5 years ago by ▴ 70
50 results • Page 1 of 1
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Recent Replies
Comment: Is it possible to isolate and merge overlapping hits from a BLAST search Aligned by Leah • 0
Thank you for the response Buffo - I used the online BLAST instead of command line. I did suggest to my supervisor about going about it the…
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