User: Sher, Falak

gravatar for Sher, Falak
Sher, Falak80
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80
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New User
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Last seen:
6 years, 10 months ago
Joined:
7 years, 1 month ago
Email:
f*********@childrens.harvard.edu

Posts by Sher, Falak

<prev • 8 results • page 1 of 1 • next >
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Citing Galaxy
... I did ChIP-Seq analysis using Galaxy; I was just wandering which one is most relevant article to cite Galaxy for this kind of work (ChIP- Seq) Thank you in advance, Falak ...
chip-seq written 6.9 years ago by Sher, Falak80 • updated 6.9 years ago by Jennifer Hillman Jackson25k
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Bowtie
... Hi Experts, I have single end Illumina reads from ChIP-Seq experiment. The files have encoding Illumina 1.5, and the sequence length is 76bp. After basic FastQc I want to map the sequences using Bowtie. My question is: do I need to split my reads (farward and backward) before running mapping tool ...
bowtie alignment written 7.1 years ago by Sher, Falak80 • updated 7.1 years ago by Jennifer Hillman Jackson25k
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Map With Bowtie
... Hi Colleagues, I mapped illumina sequences using Bowtie on Galaxy server, I could not locate the information, like how many there were total reads and in what percentage they are mapped with mouse genome etc (samples were from mouse). Help and suggestions are greatly acknowledged, Thank you for at ...
bowtie alignment written 7.1 years ago by Sher, Falak80 • updated 5.5 years ago by Jennifer Hillman Jackson25k
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Macs
... while using MSCS tool from Galaxy I get following mesg. with BED file: "Treatment tags and Control tags are uneven! FDR may be wrong" Any suggestion to fix it.. I don't understand its implication, my data is form single illumina chIP-Seq experiment. I use Bowtie from Galaxy for mapping. F ...
bowtie alignment written 7.1 years ago by Sher, Falak80 • updated 6.9 years ago by Jennifer Hillman Jackson25k
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Convert Formats
... Hi colleagues, I used MACS for peak finding through Galaxy, I want to convert the format of the resulted wig files into bigwig using Galaxy tool "convert formats' The job is executed but not running, I redo even then it does not start. it is stucked with the message, job is waiting to run. logout a ...
macs written 7.1 years ago by Sher, Falak80 • updated 7.1 years ago by Daniel Blankenberg ♦♦ 1.7k
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Galaxy Server-Ftp
... HI I would like to use Galaxy server to upload files via FTP. I seek help for, log in to the FTP server at main.g2.bx.psu.edu. I dont see ftp log in option there. help please ? Falak ...
galaxy written 7.1 years ago by Sher, Falak80 • updated 7.1 years ago by Nate Coraor3.1k
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Brad Chapman 'S Tool
... Hi if any body is using "Calculates coverage from a BAM alignment file" tool at local Galaxy? regards, Falak ...
galaxy written 7.1 years ago by Sher, Falak80 • updated 7.1 years ago by Peter Cock1.4k
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Comment: C: Convert Solid Data
... Hello collegues, I have two questions which I could not get answered. I have Illumina single end sequences files, and want to use them for ChIP-Seq analysis. My first question is: In Galaxy screencasts (ChIP-Seq analysis for TAF1-protein...) he does not tell how he has generated the txt. format of ...
written 7.2 years ago by Sher, Falak80

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