User: dzisis1986

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dzisis198620
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Posts by dzisis1986

<prev • 74 results • page 1 of 8 • next >
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Comment: C: Kruskal-Wallis rank test between different subsets of data table
... Ranks are coming by using the rank function of R to normalize the count data. It is a way of normalizing ngs data in roder to have a result between 0-1. The biggest rank the more counts. ...
written 4 months ago by dzisis198620
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Comment: C: Kruskal-Wallis rank test between different subsets of data table
... Fragments are coordinates in the genome were reads are found. i use the count of reads after mapping and then i calculate the ranks. The result of ranking is a table like that and i want to perform statistical test on that. ...
written 4 months ago by dzisis198620
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Comment: C: Kruskal-Wallis rank test between different subsets of data table
... No each line is a fragment. so for each fragment we have 2 conditions with 3 replications and for each line for those 2 groups ( with 3 values each) we want to make a non parametric test . So at the end the table above will have one extracolumn at the end for each line with the result of the test ! ...
written 4 months ago by dzisis198620
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Comment: C: Kruskal-Wallis rank test between different subsets of data table
... Hi, Thank you for your advice . Mainly i agree with you but in my case we have ranked counts in fragments . so the start and end are the coordinates of each fragment. So for each fragments i want to compare the ranks in replicates of each condition with the other condition. ...
written 4 months ago by dzisis198620
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Comment: C: Kruskal-Wallis rank test between different subsets of data table
... So what kind of non parametric test or other test you suggest in my case . Its fixed that for each condition i will have 3 samples . ...
written 4 months ago by dzisis198620
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Comment: C: Kruskal-Wallis rank test between different subsets of data table
... Why not Kruskal-Wallis ? The Mann-Whitney is suggested because i have 3 valuews for each condition ? What is the difference? How i will use this or other test in the for loop for a big data set with more than 10000 lines ? ...
written 4 months ago by dzisis198620
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Kruskal-Wallis rank test between different subsets of data table
... Hello i have a table like this : chr start end con_1_1 con_1_2 con_1_3 con_2_1 con_2_2 con_2_3 1 1 7512 0.45180723 0.21982759 0.06666667 0.4105960 0.1024735 0.2284710 1 13169 20070 0.07142857 0.77631579 0.90434783 0.1363636 0.8985507 0.6033058 1 ...
R statistics kruskal-walls test written 4 months ago by dzisis198620 • updated 4 months ago by gbl170
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Answer: A: Use ART illumina to create miRNA simulated data
... So the result is that no one is able to understand how ART works for miRNA simualted data ? No one used this specific version ( https://sourceforge.net/projects/skewer/files/Simulator/ ) of ART to produce reads that contain adapter contaminants? ...
written 8 months ago by dzisis198620
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Comment: C: Use ART illumina to create miRNA simulated data
... I would like to create simulated miRNA reads in order to test a pipeline i already tested for 400 miRNA data sets. I found that ART is the most efficient tool to simulate reads and also there is available a new version from skewer team ( https://sourceforge.net/projects/skewer/files/Simulator/ ). In ...
written 8 months ago by dzisis198620
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Comment: C: Use ART illumina to create miRNA simulated data
... So you suggest me to use a genome, lets say human genome and create profiles from my fq miRNA files and those 2 as input to ART ? And what about adapters ? My first problem is to be able to use ART and create a simple data set and then understand how to use it in order to create specific miRNA seq ...
written 8 months ago by dzisis198620

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Popular Question 12 months ago, created a question with more than 1,000 views. For Bowtie 2: bowtie build does not create .rev index files
Popular Question 13 months ago, created a question with more than 1,000 views. For Bowtie 2: bowtie build does not create .rev index files

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