User: Ankit

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Ankit100
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Posts by Ankit

<prev • 51 results • page 1 of 6 • next >
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Comment: C: Which statistical test to compare samples in Violin Plot?
... I am still not clear which test to use. Please help. ...
written 6 days ago by Ankit100
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Comment: C: Which statistical test to compare samples in Violin Plot?
... ![Here is the image attached] https://ibb.co/g4BkhTY ...
written 7 days ago by Ankit100
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Comment: C: Which statistical test to compare samples in Violin Plot?
... We have methylation EPIC array data 850K for five individals as I previously mentioned. After normalization and filtering ~750K probes left. I would like to compare global or overall methylation profle for control vs patient. I would like to see if there is a significant difference between the two ...
written 7 days ago by Ankit100
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Comment: C: Which statistical test to compare samples in Violin Plot?
... So my data has ~750,000 methylation array probes. I first plotted the boxplot and then violin. I have five individuals with varying methylation profile for each probes. So which test do you think is applicable to this kind of data, if I want to compare control with any of the 2 patient I have? ...
written 7 days ago by Ankit100
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Comment: C: Which statistical test to compare samples in Violin Plot?
... Yes you are right. So as #Carambakaracho suggested, I will apply t-test? ...
written 7 days ago by Ankit100
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Comment: C: Which statistical test to compare samples in Violin Plot?
... Thanks for reply. So I apply t-test for control vs patients? Is it Unpaired t-test? Please help Thanks ...
written 7 days ago by Ankit100
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Which statistical test to compare samples in Violin Plot?
... Hi, I have 5 samples (1 control +2 patients + 2 parents) for which I plotted an average methylation profile using violin plot. I would like to know which statistical test I need to apply to compare control vs patients 1/ patient2? An example plot is like similar to this [google image][1]: Thanks ...
violin plots methylation statistics written 7 days ago by Ankit100 • updated 7 days ago by Carambakaracho1.2k
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Comment: C: RNAseq: Fisher-exact test with Benjamini-Hochberg multiple-testing correction us
... Hi, Thank you for the suggestion. Using p.value provided by Deseq2, I recalculated padj (using p.adjust(p.val, method ="BH")).It matched with p.adj value provided by Deseq2. But Can I apply fisher.test function on raw/normalized count matrix to get p.value gene-wise? Later I can apply the fun ...
written 7 days ago by Ankit100
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Comment: C: RNAseq: Fisher-exact test with Benjamini-Hochberg multiple-testing correction us
... Thanks. Fisher.test gives only one p-value for contingency table. How will I get gene-wise p-values (as show in the table above or as obtained from DESeq2 normalisation)? ...
written 10 days ago by Ankit100
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Comment: C: RNAseq: Fisher-exact test with Benjamini-Hochberg multiple-testing correction us
... Thanks for the response. This function will work on p-values as input. *As in manual:* **Given a set of p-values, returns p-values adjusted using one of several methods.** I have DEseq2 normalized count matrix. How should I proceed in that case? ...
written 10 days ago by Ankit100

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Popular Question 8 weeks ago, created a question with more than 1,000 views. For Normalisation of RNAseq data and NOIseq

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