User: iraia.munoa
iraia.munoa • 10
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Posts by iraia.munoa
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... Hi all!
I am working with ChiP-Seq data (Control and Treatment samples, with 2 replicates in each) and I have used DiffBind R package to finally obtain the differential binding sites.
First of all I tryed with the protocol "DiffBind: Differential binding analysis of ChIP-Seq peak data" to see how ...
written 3 days ago by
iraia.munoa • 10
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... Hi! I have a question about something similar. If I have 3 control and 3 treatment samples, each of one corresponding at a time point (24h 72h and 120h). How do you recommend to run strigtie? 1- If I want to compare in the differential expression analysis control and treatment in each time point do ...
written 12 weeks ago by
iraia.munoa • 10
• updated
12 weeks ago by
grant.hovhannisyan • 1.3k
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... Hi everybody,
I am new with RNA-Seq bioingormatic analysis and I am having some troubles when comparing results from visualization and final Ballgown outputs.
I have 6 RNA-Seq samples with two replicates for each one, and run in two different lines (So I have 4 fastq files for each sample).
First ...
written 12 weeks ago by
iraia.munoa • 10
• updated
12 weeks ago by
RamRS ♦ 19k
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... Hi!
I have run bowtie2 for the alignment of my chip-seq files, and then run samtools view to convert the sam files in bam. Also I have run samtools sort, to sort the bam file and samtools index to index the bam file.
> bowtie2 -q -x mm10_genome -U file_trimmed.fq -S file.sam --no-unal
> samt ...
written 4 months ago by
iraia.munoa • 10
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