User: Ateequr Rehman

gravatar for Ateequr Rehman
Reputation:
150
Status:
New User
Location:
Last seen:
6 years, 2 months ago
Joined:
6 years, 7 months ago
Email:
a******@yahoo.com

Posts by Ateequr Rehman

<prev • 15 results • page 1 of 2 • next >
0
votes
2
answers
1.9k
views
2
answers
Comment: C: Inconsistency Between Cufflinks And Cuffdiff. This Is Killing Me.
... Dear All I am analysing bacterial RNA seq (illumina). as my reference genome is not in galaxy. so i need to downlaoded the reference genome from  NCBI and upload to my history Should i use reference genome with  gene features or  single  fasta file with out any annotation information. even after d ...
written 6.2 years ago by Ateequr Rehman150
0
votes
3
answers
897
views
3
answers
Comment: C: Problem With Executing Larger Files
... Just wanted to make sure if cofflink is working or not cufflink is not detecting my SAM or BAM files., ...
written 6.3 years ago by Ateequr Rehman150
0
votes
1
answer
1.3k
views
1
answers
Comment: C: Tophat Mapping
... Dear All I need some (lots) suggestions and help,  first and most important is that i am working on bacterial RNA seq (illumina reads) my analysis steps are as following .... Step 1.  FASTQ sequence data was groomed Step 2. I did mapping by Bowtie with default parameters. Reference genome fasta f ...
written 6.3 years ago by Ateequr Rehman150
0
votes
2
answers
992
views
2
answers
Cuffdiff
... Dear All I have simple and question for cuffdiff should we run cuffdif on merge transcript file (produced by cuffmerge) and concatenate data sets or directly on cufflink produced files, in the later case, i have two transcript files resulting from cufflink on sample 1 and 2 respectively, result usin ...
cuffmerge rna-seq written 6.3 years ago by Ateequr Rehman150 • updated 6.3 years ago by Jennifer Hillman Jackson25k
0
votes
1
answer
779
views
1
answers
Comment: C: Cloudman - Problem Starting Shared Cluster
... Dear Administartor My disk space quote is full, is their any way to increase it,or only way is delete some files... Best Ateeq   Ateequr Rehman House No. 2 ground floor Blauenstr. 10 79115 Freiburg im Breisgau ________________________________ ...
written 6.4 years ago by Ateequr Rehman150
0
votes
1
answer
1.5k
views
1
answer
Cuffdiff Result P And Q Values
... Dear galaxy user After running cuffdiff on my two samples (SAM files from bowtie) i got a list with p and q values, and löast colum is saying abou significance with P value, it seems like the comparison should be significant, but in Q value is 1, and last coumn is saying not significant any one ha ...
bowtie alignment written 6.4 years ago by Ateequr Rehman150 • updated 6.4 years ago by Jennifer Hillman Jackson25k
0
votes
0
answers
1.4k
views
0
answers
Cuffdiff Result P And Q Values
... Dear galaxy user After running cuffdiff on my two samples (SAM files from bowtie) i got a list with p and q values, and löast colum is saying abou significance with P value, it seems like the comparison should be significant, but in Q value is 1, and last coumn is saying not significant any one ha ...
bowtie alignment written 6.4 years ago by Ateequr Rehman150
0
votes
1
answer
788
views
1
answer
Cufflink Not Working
... Dear Galxy admin and user I have generated BAM file from my RNa seq data by using Bowtie with custom reference, followed by Filter SAM and SAM to BAM connversion, i wish to run cufflink, but its just givinbg me emty file, any suggestion, how to proceed   Ateequr Rehman House No. 2 ground floor Bl ...
bowtie alignment written 6.5 years ago by Ateequr Rehman150 • updated 6.4 years ago by Jennifer Hillman Jackson25k
0
votes
1
answer
2.6k
views
1
answers
Comment: C: Speed Up Uploading Into Local Galaxy, Terribly Slow!!
... Hello Admin and users i wanted to visualize my data, i ran Tophat and converted sam to BAM and then cufflink, but totally unable to see any output data, any suggestion, how i could see my results For administrators, on my account run number 76 to 79 are the run i want to visualize Thanks Ateeq ...
written 6.5 years ago by Ateequr Rehman150
0
votes
1
answer
2.6k
views
1
answers
Comment: C: Speed Up Uploading Into Local Galaxy, Terribly Slow!!
... Dear Glaxy users and admin I ran my sequence data on FASTQC tool, output says it is EncodingSanger / Illumina 1.9 now i want to groom my file, but groomer does not have option for 1.9 in "Input FASTQ quality scores type" any idea which option i should select to grroom my file, later i want to ...
written 6.5 years ago by Ateequr Rehman150

Latest awards to Ateequr Rehman

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 16.09
Traffic: 87 users visited in the last hour