User: bisht20diksha

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Posts by bisht20diksha

<prev • 13 results • page 1 of 2 • next >
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how to retrieve sequences from genome
... Hello I have a sequenced genome for my sample. Also for some genes i have chromosome start and end. Now i want to retrieve these sequences from genome? How can i retrieve these sequences from the sequenced genome? ...
genome sequences written 15 months ago by bisht20diksha10 • updated 15 months ago by WouterDeCoster40k
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Comment: C: error in intron clustering
... thanks for the guidance. link for the leafcutter: http://davidaknowles.github.io/leafcutter/ ...
written 16 months ago by bisht20diksha10
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error in intron clustering
... Hello I am trying to use leafcutter for differential alternative analysis. As per its requirement, I have generated bam files using STAR. Now with leafcutter, I have generated bam.juncs and test_juncfiles.txt files successfully using script: for bamfile in `ls run/geuvadis/*.bam` do ...
leafcutter intron clustering written 16 months ago by bisht20diksha10
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Robust tool for parsimony phylogenetic tree construction?
... I have a large data set.Which tool is best for the construction of phylogenetic tree based on parsimony? thanks ...
parsimony phylogenetic analysis written 16 months ago by bisht20diksha10 • updated 16 months ago by h.mon26k
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error in differential analysis using GLM test
... Hello. I am trying to use splAdder for alternative splicing analysis. I have three replicates of barley both for control and treated respectively i.e c1, c2,c3 and t1, t2, t3. I ran splAdder successfully and got the output. I have quantified and confirmed alternative splicing events based on the RNA ...
glm test spladder written 17 months ago by bisht20diksha10 • updated 17 months ago by Kevin Blighe46k
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error in differential analysis using splAdder
... Hello. I am trying to use splAdder for alternative splicing analysis. I have three replicates of barley both for control and treated respectively i.e c1, c2,c3 and t1, t2, t3. I ran splAdder successfully and got the output. I have quantified and confirmed alternative splicing events based on the RNA ...
differential analysis spladder written 17 months ago by bisht20diksha10
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error in identifying alternativce splcing using splAdder
... Hello.I am trying to identify alternative splicing using splAdder. I have annotation GTF file. I have three replicates of barley both for control and treated respectively i.e c1, c2,c3 and t1, t2, t3. I have generated sorted bam and .bai files and put them in a working directory. When I ran splAdder ...
spladder written 17 months ago by bisht20diksha10 • updated 5 months ago by Biostar ♦♦ 20
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Error while generating index files using samtools
... Hello. I am trying to identify differential alternative splicing between samples using splAdder. It requires sorted bam files and index files. I have sorted bam files individually using samtools script samtools sort test.bam test_sorted Now, I am trying to generate index file using script: ...
samtools spladder written 17 months ago by bisht20diksha10 • updated 17 months ago by arup1.5k
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(Closed) problem in importing matplotlib
... My default python version on the system is python3.6. I am using a tool that works on python 2.7, the tools works well when i mention python2.7 before running the python script. However, at the final phase of plotting it says no matplotlib module. I installed it using conda but the same error persi ...
python matplotlib written 17 months ago by bisht20diksha10 • updated 17 months ago by WouterDeCoster40k
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Comment: C: input for rMATS
... It is obvious that after sequencing, the read length of all the reads would not be same and the strict option of equal readlength of all threads demands that there must be some trimming which will delete all the reads below a set limit. It definetly will make a huge impact on the outcome, since a la ...
written 17 months ago by bisht20diksha10

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