Where Can I Find Already Mapped Reads ?
2
1
Entering edit mode
11.1 years ago

Hi everyone,

i am in my way for developing an RNA-seq data analysis pipeline, and I have some theories to implement for further analysis which are planned to be implemented after aligning reads to a reference genome using Bowtie.

I want to test this part of the pipeline to an already aligned set of reads, no matter the original experiement, I want just some data to play with for that part of the pipeline.

As I am new to RNA-seq, I wanted to ask you when you go to GEO to download some RNA-seq data what are the files that should be downloaded.

I found SRA files in a single GEO entry, should i download them all and convert them to sSAM format ? What is then the best tool to convert SRA to SAM.

Thank you

Radhouane

sam bam sra • 2.5k views
ADD COMMENT
2
Entering edit mode
ADD COMMENT
0
Entering edit mode
11.1 years ago
Drio ▴ 920

One thousand genomes project

ADD COMMENT

Login before adding your answer.

Traffic: 1239 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6