User: maisarasora

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maisarasora10
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New User
Location:
USM, Malaysia
Last seen:
43 minutes ago
Joined:
4 years, 5 months ago
Email:
m**************@gmail.com

Posts by maisarasora

<prev • 8 results • page 1 of 1 • next >
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Combining the original replicates and pseudo-replicates for differential binding analysis?
... Hi. I want to compare the differential binding of suz12 (mixed peaks) in two conditions; Control(dmso) and Treatment(dox) I have two replicates for each condition and used them for peak calling by EPIC2 against input 1. suz12dmso_R1 2. suz12dmso_R2 3. suz12dox_R1 4. suz12dox_R2 I checked the QC ...
replicates R diffbind chip-seq written 3 days ago by maisarasora10
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Comment: C: How to handle 4 fastq file for one paired-end sample?
... Thank you for your reply... ...
written 24 days ago by maisarasora10
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Comment: C: How to handle 4 fastq file for one paired-end sample?
... I just realize that... I don't clearly understand the different lane and read because there are only 2 fastq files in the public data... I'm using concatenate to merge the data from the same read ...
written 24 days ago by maisarasora10
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Comment: C: How to handle 4 fastq file for one paired-end sample?
... Thank you so much!... At first, I don't clearly understand the different lane and read because there are only 2 fastq files in the public data... As suggested, I merged the two files from the same read using concatenate, I did the bowtie2 for the two reads and I get 99.24% alignment... Do you have ...
written 24 days ago by maisarasora10
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Comment: C: How to handle 4 fastq file for one paired-end sample?
... Thank you... I also tried that approach.. At first I don't clearly understand about the different lane and read because there are only 2 fastq files in the public data... As suggested below, I'm now merging the two files from the same read using concatenate, I did the bowtie2 for the two reads and I ...
written 24 days ago by maisarasora10
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Comment: C: How to handle 4 fastq file for one paired-end sample?
... bowtie2 -p 8 -N 1 --no-mixed mode --no-discordant -x $REF -1 IN1_S1_L001_R1_001.fastq -2 IN1_S17_L002_R1_001.fastq -S /mnt/e/sequence_data/ChIP-seq/FASTQ/14INPUT/bams/IN1R1.sam this is the command line that I used ...
written 25 days ago by maisarasora10
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Comment: A: How to handle 4 fastq file for one paired-end sample?
... `bowtie2 -p 8 -N 1 --no-mixed mode --no-discordant -x $REF -1 IN1_S1_L001_R1_001.fastq -2 IN1_S17_L002_R1_001.fastq -S /mnt/e/sequence_data/ChIP-seq/FASTQ/14INPUT/bams/IN1R1.sam` this is the command line that I used ...
written 25 days ago by maisarasora10
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How to handle 4 fastq file for one paired-end sample?
... Hi everyone, I am new to the NGS. For training, I used paired-end data from public files, and usually, there were only two fastq files for the two reads. Now, I receive the fastq files for my ChIP-seq studies. We did 50 bp paired-end. And for one PE file, there are four fastq files. For example: ...
alignment chip-seq written 25 days ago by maisarasora10 • updated 25 days ago by jordi.planells220

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