Connect and share knowledge within a single location that is structured and easy to search. I want to download all SRA file from the following project.
Is there a method to download all the SRA files at the same time? You can use fastq-dump from the sratoolkit, and make a for loop around it in bash. This can also be done with prefetch of the sratoolkit:. As for downloading multiple files, I've just used multiple wget commands. I suggest you follow the advice in Eric A Brenner's answer and just download the fastq files. However, if you really really want to use the SRA files for some reason, note that you can use parallel-fastq-dump to make things faster.
Do follow its advice regarding using prefetch. You'd need to combine that with the answer from b. You can download an entire project using pysradb :. Sign up to join this community. The best answers are voted up and rise to the top. Stack Overflow for Teams — Collaborate and share knowledge with a private group.
Create a free Team What is Teams? Learn more. Asked 4 years, 1 month ago. Active 7 months ago. Viewed 8k times. Improve this question. Add a comment. Hi, I want to compare gene deferentially expressed in two conditions 1 and 2. I don't have a GT I am trying to use Cuffdiff to find significant changes in mRNA transcript expression between two This student was more adventurous. I think he actually could do more of what he tried with more e I have recently mapped RNA-seq reads to the sacCer2 genome using bowtie in galaxy.
I then filtere Hello, I am trying to identify differentially expressed genes across three groups. The groups c Hello, I am new to bioinformatics, and am looking at the expression of bacteria genes under diff Hi all, I am new to RNA seq analysis and want to look at the expression of a small number of gen Hi I am just starting up and getting to know and analyze my data from the RNA-seq. I have 2 biol I'm an old school molecular biologist who studies gene expression but is quite new to bio-computi Hello, I am relatively new to Chip-seq analysis and have a question regarding macs2callpeaks.
I have two groups with four biological replicates per group. I tried comparing group 1 to group Hey I'm trying to compare the transcript expression levels between two conditions.
0コメント