User: rororo

gravatar for rororo
rororo0
Reputation:
0
Status:
New User
Last seen:
2 weeks, 6 days ago
Joined:
1 year, 3 months ago
Email:
t*******@gmx.at

Profile information, website and location are not shown for new users.

This helps us discourage the inappropriate use of our site.

Posts by rororo

<prev • 19 results • page 1 of 2 • next >
0
votes
0
answers
67
views
0
answers
Microscope/Genoscope RESTful API
... Does anyone know how to download ('export') all files from one organism on the Microscope/Genoscope platform? They offer a REST API interface but there is no manual. this is how the site (for whatever organism is chosen) looks like: https://www.genoscope.cns.fr/agc/microscope/search/exportForm.php? ...
rest genoscope api databases mage written 27 days ago by rororo0
0
votes
0
answers
163
views
0
answers
Comment: C: SRAdb: Search full text in study_type
... NCBI does not mention SRA ...
written 10 weeks ago by rororo0
0
votes
0
answers
163
views
0
answers
SRAdb: Search full text in study_type
... I want to search the entire SRA using the SRAdb package. Specifically, I want to get all accession number of Metagenomes (as study_type) with "enrichment culture" (full text search) The SRAdb manual unfortunately only shows either how to display all study_types or the full text search. ...
sra bioconductor R written 10 weeks ago by rororo0
0
votes
3
answers
306
views
3
answers
Comment: C: List of all GO terms
... exactly. But there is not a single file that has the information about the category... ...
written 3 months ago by rororo0
2
votes
3
answers
306
views
3
answers
List of all GO terms
... I am desperately looking for a gene onthology database file, that contains the GO Number and the corresponding category (molecular function/biological process/cellular component). How do I retrieve such a list? ...
gene database onthology written 3 months ago by rororo0 • updated 3 months ago by EagleEye5.1k
0
votes
1
answer
186
views
1
answers
Comment: C: bbduk: quality filtering and singletons
... this, plus if there is a read present in R1 but the corresponding one is missing in R2 ...
written 3 months ago by rororo0
1
vote
1
answer
186
views
1
answer
bbduk: quality filtering and singletons
... I want to use bbduk of the bbmap package to quality filter my paired-end Illumina reads according to the following: - minimum quality value of 2 - minimum length of 36 - remove single reads To me, the bbduk manual is here a bit unclear. Does the following command remove singletons? bbduk.sh i ...
genome reads bbmap written 3 months ago by rororo0
0
votes
0
answers
410
views
0
answers
HMMER output parsing script
... I did an hmmscan of some proteins against the CAZy database using the `domtblout`option. Now I want to filter out overlapping domains, based on the e-value. I found a script on research gate: #!/usr/bin/env sh # Yanbin Yin # 07/21/2015 # hmmscan output parser # Usage: sh hmmsca ...
perl hmm parser written 6 months ago by rororo0 • updated 4 months ago by Biostar ♦♦ 20
0
votes
1
answer
344
views
1
answers
Comment: C: Batch Download websites from php database
... Yes I know that site and just fetching the cluster number was my first guess, but when I save site, only a small file with the content "Error connecting to the database !" appears. Also happens when I click the link you posted. Thanks for your help! ...
written 7 months ago by rororo0
1
vote
1
answer
344
views
1
answer
Batch Download websites from php database
... I am working on nematodes and want to download ESTs from Mark Blaxter's website: http://www.nematodes.org/NeglectedGenomes/NEMATODA/Steinernema/index.html The programm that curates the database seems outdated, so I guess I need to download them manually. Is there a solution for automating this? e. ...
unix php written 7 months ago by rororo0 • updated 7 months ago by LLTommy1.2k

Latest awards to rororo

Popular Question 6 months ago, created a question with more than 1,000 views. For Tool for calculating sequence statistic values (e.g. N50) for multiple bins

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2083 users visited in the last hour