User: majeedaasim

gravatar for majeedaasim
majeedaasim20
Reputation:
20
Status:
New User
Location:
United States
Last seen:
1 day, 23 hours ago
Joined:
3 years ago
Email:
m**********@gmail.com

Posts by majeedaasim

<prev • 79 results • page 1 of 8 • next >
0
votes
0
answers
100
views
0
answers
Comment: C: how to reorder lines in afile based on a list of gene IDS?
... I want solution in R ...
written 6 days ago by majeedaasim20
2
votes
0
answers
100
views
0
answers
how to reorder lines in afile based on a list of gene IDS?
... I have two files; File one: ID SCORE PVALUE A 1 0.1 B 2 0.2 C 3 0.3 D 4 0.4 FIle 2: ID C B A Now I want to reorder my file 1, in the sequence as present in file 2. THanks ...
reorder written 6 days ago by majeedaasim20
1
vote
2
answers
98
views
2
answers
How to extract gene IDs from a tabular file based on a list of locus tags?
... I have a file like: GeneID Locus tag Protein name 839580 AT1G01010 NAC domain containing protein 1 839569 AT1G01020 ARV1 family protein 839569 AT1G01020 ARV1 family protein 839569 AT1G01020 ARV1 family protein I also have a list of locus tags (arround 5000) which I want to extract from the ...
R written 10 days ago by majeedaasim20 • updated 10 days ago by Alex Reynolds25k
0
votes
0
answers
121
views
0
answers
Comment: C: problem in trinity differential gene expression protocol
... When I triued to install it from bioconductor using source("https://bioconductor.org/biocLite.R") biocLite("edgeR") It gives along list of errors like: /usr/bin/locale:88:20: error: stray '\10' in program /usr/bin/locale:89:1: error: stray '\16' in program /usr/bin/locale:89 ...
written 20 days ago by majeedaasim20 • updated 20 days ago by Ram17k
0
votes
0
answers
121
views
0
answers
Comment: C: problem in trinity differential gene expression protocol
... Also when I tried to run edgeR through R, it says; > library(edgeR) Error in library(edgeR) : there is no package called ‘edgeR’ ...
written 20 days ago by majeedaasim20
0
votes
0
answers
121
views
0
answers
Comment: C: problem in trinity differential gene expression protocol
... It is executed through the perl script provided by the Trinity developers. So running it through R is not a concern here. ...
written 20 days ago by majeedaasim20
0
votes
0
answers
121
views
0
answers
(Closed) problem in trinity differential gene expression protocol
... After successful quantification of reads through trinity protocol., I tried to generate the count matrix through the provided perl script. as perl /home/aasim/anaconda3/pkgs/trinity-2.5.1-0/opt/trinity-2.5.1/util/abundance_estimates_to_matrix.pl --est_method RSEM S1/S1.isoforms.results S2/S2.is ...
trinity dge written 20 days ago by majeedaasim20
0
votes
0
answers
74
views
0
answers
(Closed) Trinity: Problem in "run_DE_analysis.pl"
... I used the trinity scripts for differential gene expression. the command I used is /path/to/run_DE_analysis.pl --matrix RSEM.gene.counts.matrix \ --method edgeR \ --samples_file sample_file_forDE \ --contrasts contrast_file following information is given ...
trinity dge written 22 days ago by majeedaasim20 • updated 22 days ago by Ram17k
0
votes
1
answer
107
views
1
answers
Comment: C: problem in matrix generation after abundance estimation by RSEM?
... I see that there is edgeR package in anaconda3 named as "bioconductor-edger-3.14.0-0" Trinity is also present in anaconda3 It seem R is also operating from conda environment. Then what is the problem ...
written 23 days ago by majeedaasim20
0
votes
1
answer
107
views
1
answers
Comment: C: problem in matrix generation after abundance estimation by RSEM?
... which R returns the following `/home/aasim/anaconda3/bin/R` ...
written 23 days ago by majeedaasim20

Latest awards to majeedaasim

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1135 users visited in the last hour