User: majeedaasim

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majeedaasim20
Reputation:
20
Status:
New User
Location:
United States
Last seen:
1 day, 20 hours ago
Joined:
2 years, 1 month ago
Email:
m**********@gmail.com

Posts by majeedaasim

<prev • 16 results • page 1 of 2 • next >
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Comment: C: problem in running IGV
... I start IGV by simply typing igv in the terminal > aasim@aasim-ProLiant-ML150-Gen9:~$ echo ${DISPLAY}:0 aasim@aasim-ProLiant-ML150-Gen9:~$ java -version java version "1.8.0_151" ...
written 2 days ago by majeedaasim20
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problem in running IGV
... I am using Ubunto 16.4. I just installed the IGV with following commands sudo apt-get update sudo apt-install igv When I try to run it by running the command igv, following error is shown > ERROR [2017-10-20 23:52:04,624] [DefaultExceptionHandler.java:49] [main] Unhandled exception java ...
software error igv written 2 days ago by majeedaasim20
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Comment: C: Problem in installing Trinity.
... I am using Trinity version 2.5.0 on Ubunto 16.4 I checked my bowtie2 version and it is up to date bowtie2 --version /usr/bin/bowtie2-align-s version 2.2.6 64-bit Built on lgw01-12 Mon Dec 28 11:09:46 UTC 2015 Compiler: gcc version 5.3.1 20151219 (Ubuntu 5.3.1-4ubuntu1) Options: -O3 -m64 -msse2 ...
written 3 days ago by majeedaasim20
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Problem in installing Trinity.
... I installed Trinity on my ubunto 16.04. When I test it on example data, Clustering, k-mer building, contig construction and clustering by Inchworm went fine but after that, it shows following error: bowtie2-build: unrecognized option '--threads' Bowtie 2 version 2.2.6 by Ben Langmead (langm ...
software error trinity written 3 days ago by majeedaasim20 • updated 3 days ago by h.mon9.1k
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Can spliceR be used to classify the AS events for denovo transcripts?
... I have no reference genome for my organism. I want to classify AS events. spliceR is well suited for AS event classification. Can this be used for my RNA seq data. ...
splicer alternative splicing written 12 days ago by majeedaasim20 • updated 11 days ago by kristoffer.vittingseerup300
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classification of AS events without a reference genome
... I am interested in classifying the AS events from my RNA seq reads. There is no reference genome available for my organism. Is there any tool that works for this? Thanks ...
as classification no ref. genome written 27 days ago by majeedaasim20
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Help to interpret results of kisSplice
... I am analysing the alternative splicing in my rna seq reads. NO reference genome is available. KIsSplice is adapted to this purpose. I ran kissSplice on example data . I got the results folder containing many files. The user guide does not explain how to interpret the results, which is especially ...
kissplice rna-seq alternative splicing written 4 weeks ago by majeedaasim20 • updated 2 days ago by vincent.lacroix50
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require upload file into TRAPID
... I am using TRAPID For a specific purpose. I need to upload my assembled transcript file. THe web tool has the limitation of 32 MB maximum size. MY file is 209 MB and after compression it is 36 mb. Other way to upload is to do it through FTP. How could get the file upload from FTPm client like filezi ...
assembly written 5 weeks ago by majeedaasim20 • updated 28 days ago by Biostar ♦♦ 20
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Suggesstion for annotating transcript asembly of a gymnosperm
... I have generated a denovo assembly of a gymnosperm. I need to annotatate my transcripts now. I know it could be done using blastx and then employing GO, KEGG etc databases. Can anyone suggest me a straight forward way for executing it specifically with the gymnosperm data. thanks ...
alignment written 5 weeks ago by majeedaasim20
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need to retrieve the list of plants in uniprot for blast
... I am using annocript pipeline for annotating my assembly. The pipeline has a requirement of giving list of organisms against which to be blast is performed. I made a file that contained viridiplantae, but it did not work. I have to produce the list of all the plants in uniprot now. Can someone tell ...
blast written 6 weeks ago by majeedaasim20

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