User: anu014

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anu014160
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India
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4 days, 14 hours ago
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3 years, 4 months ago
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Posts by anu014

<prev • 143 results • page 1 of 15 • next >
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Integration of Chip-seq and RNA-Seq data
... Hello Biostars, Hope you all are doing well! Can someone suggest me any tool other than BETA to integrate RNA-Seq data (from cuffdiff) and Chip-seq data (MACS2 peaks.xls) ? I saw a lay method here (using venn diagram) but I want something more technical - https://geneviatechnologies.com/blog/int ...
next-gen chip-seq rna-seq written 5 days ago by anu014160
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Answer: A: Plot lines color change in plotAvgProf2 [ChIPseeker]
... Please consider this alternative : https://github.com/GuangchuangYu/ChIPseeker/issues/89 All the best! ...
written 19 days ago by anu014160
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Comment: C: Plot lines color change in plotAvgProf2 [ChIPseeker]
... I figured out the error was due to absence of library(ggplot2). Still after adding this. I got this: >> preparing promoter regions... 2018-11-19 03:12:55 IST >> preparing tag matrix... 2018-11-19 03:12:55 IST >> plotting figure... 2018-11-19 03:13:31 IST ...
written 21 days ago by anu014160
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Comment: C: Plot lines color change in plotAvgProf2 [ChIPseeker]
... Greetings of the day Guangchuang! I tried the below commands , but it gave me error: require (ChIPseeker) require (clusterProfiler) library(GenomicFeatures) txdb <- makeTxDbFromGFF("trial.gff3",circ_seqs=character(), organism="Mycobacterium tuberculosis") peak2 < ...
written 21 days ago by anu014160
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Comment: C: Plot lines color change in plotAvgProf2 [ChIPseeker]
... Thank you Guangchuang! I'll try it now. And how the thickness of the line can be changed in the plot? Can we use all the ggplot2 plot styling functions with plotAvgProf2? ...
written 26 days ago by anu014160
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Plot lines color change in plotAvgProf2 [ChIPseeker]
... Hello Biostars! I hope you are shining bright! Today, I'm dealing with a very basic problem that's plotting lines color change. It's very easy in general plot function and ggplot. But in case of a function by ChIPseeker - 'plotAvgProf2', I'm not able to figure how to give arguments as there's n ...
R chip-seq chipseeker written 27 days ago by anu014160 • updated 19 days ago by zx87546.0k
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Comment: C: 2 peak files in plotAvgProf2 [ChIPseeker]
... Thanks a lot ! It was really helpful. Can you tell me how to change the colors of the samples in the plot? It's always giving me blue n brown color as default.. ...
written 27 days ago by anu014160
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Comment: C: 2 peak files in plotAvgProf2 [ChIPseeker]
... Thanks a lot for this information! ACTUALLY, I was thinking that it's read count only.. ...
written 27 days ago by anu014160
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2 peak files in plotAvgProf2 [ChIPseeker]
... Hello Biostars!, Can someone tell me how to plot 2 peak files in a single plot using plotAvgProf2. I was using below command but it gave me just one sample: plotAvgProf2(c(peak2,peak3), TxDb=txdb, upstream=3000, downstream=3000,weightCol="fold_enrichment", xlab="Genomic Region (5'->3')", yl ...
R bioconductor chip-seq chipseeker written 8 weeks ago by anu014160 • updated 8 weeks ago by zx87546.0k
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Comment: C: Applying Steiner minimal tree algorithm in Cytoscape
... Thanks a lot Gary! It sounds quite promising. I installed ANAT app in Cytoscape. But the 'New Sub-network' option doesn't work somehow for me.. It starts like - 'Retrieving available networks.. Network Problem'. How this can be fixed? Same for 'New Background Network' option. ...
written 10 weeks ago by anu014160

Latest awards to anu014

Scholar 18 days ago, created an answer that has been accepted. For A: Plot lines color change in plotAvgProf2 [ChIPseeker]
Popular Question 8 weeks ago, created a question with more than 1,000 views. For Extension size problem in MACS2
Popular Question 8 weeks ago, created a question with more than 1,000 views. For Plotting TSS & TTS for Chip-seq peaks
Popular Question 9 weeks ago, created a question with more than 1,000 views. For How to create 12.8 billion unique alphanumeric strings of length ranging from 2-6?
Popular Question 12 weeks ago, created a question with more than 1,000 views. For How to create 12.8 billion unique alphanumeric strings of length ranging from 2-6?
Popular Question 4 months ago, created a question with more than 1,000 views. For Extension size problem in MACS2
Popular Question 5 months ago, created a question with more than 1,000 views. For How to create 12.8 billion unique alphanumeric strings of length ranging from 2-6?
Centurion 10 months ago, created 100 posts.
Voter 13 months ago, voted more than 100 times.
Supporter 21 months ago, voted at least 25 times.

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