User: glady

gravatar for glady
glady190
Reputation:
190
Status:
Trusted
Location:
Last seen:
3 months, 1 week ago
Joined:
2 years, 1 month ago
Email:
s*************@gmail.com

Posts by glady

<prev • 71 results • page 1 of 8 • next >
0
votes
0
answers
127
views
0
answers
Tools for miRNA detection and analysis
... Hello everyone, I am new to the miRNA analysis work, I have some sample reads (human) which I need to map to the reference genome and then detect the number of miRNA present in it. I have done some literature survey on the algorithms which are used for the miRNA analys ...
rna-seq mirna written 3 months ago by glady190
0
votes
0
answers
259
views
0
answers
Functional genes from meta-genomes
... hello guyzz, I have some meta genomic data with me, my doubt is how can we detect functional targeted genes from a meta-genomic data sets ? ...
gene written 10 months ago by glady190
1
vote
2
answers
893
views
2
answers
Using NCBI database in DIAMOND BLAST
... I want to use NCBI protein(nr) database in DIAMOND BLAST. But it is always giving some database extension format error. The commands for standalone BLAST and DIAMOND BLAST are different. And also the database format required for DIAMOND BLAST is different from the normal BLAST. Hence, I'm not able t ...
blast written 10 months ago by glady190 • updated 6 months ago by Biostar ♦♦ 20
0
votes
1
answer
390
views
1
answers
Comment: C: Reads for assembly
... I want to download reads for a bacterial genome, it can be of any sequencing platform doesn't matter. From where I can download reads for it ? Any databases or links ? And how can we judge whether we have to go forward with a denovo assembly or a reference assembly ? ...
written 11 months ago by glady190
1
vote
1
answer
390
views
1
answer
Reads for assembly
... I want to experience myself, how do we assemble the raw read data of a genome obtained from sequencer. From where can I download the raw reads, for constructing assemble ? ...
assembly written 11 months ago by glady190 • updated 11 months ago by Vijay Lakhujani2.5k
0
votes
0
answers
484
views
0
answers
Installing Ray meta assembler on ubuntu 16.04 LTS
... Hello guyzz, I am trying to install the Ray meta assembler on ubuntu, but I am running the following cmd on terminal : *make PREFIX=ray-build* , it is prompting an error message like: *CXX code/application_core/ray_main.o make: mpicxx: Command not found Makefile:160: recipe for target 'code/applica ...
assembly written 12 months ago by glady190
0
votes
2
answers
467
views
2
answers
Modifying Standalone BLAST output
... I am performing a standalone BLAST in ubuntu, I have downloaded the environmental metagenome (env_nt) database from NCBI. The cmd which I am using to perform BLAST is -> blastn -db env_nt -query file.fasta -out BLAST_output.fasta -max_target_seqs 1 -outfmt '6 qseqid qseq sallseqid stitle s ...
blast written 13 months ago by glady190 • updated 13 months ago by 5heikki7.3k
0
votes
0
answers
448
views
0
answers
Comment: C: MIRA assembly error
... I have used SPAdes already, but it generated a lot of contigs, more than 4000. ...
written 14 months ago by glady190
0
votes
0
answers
448
views
0
answers
Comment: C: MIRA assembly error
... After running BBMap, then should I upload those output files to MIRA as input ? Will doing this solve the problem of coverage ? ...
written 14 months ago by glady190
0
votes
0
answers
448
views
0
answers
MIRA assembly error
... Hi, I am uploading a job on MIRA. I want to assemble a bacterial genome, I have created a manifest file with all the desired features (denovo, paired end sequencing, Illumina, etc). But, while running MIRA it is giving me an error that the coverage size is exceeding beyond 300x. How can I takle this ...
assembly written 14 months ago by glady190

Latest awards to glady

Popular Question 8 months ago, created a question with more than 1,000 views. For Using COG database
Popular Question 14 months ago, created a question with more than 1,000 views. For Using COG database

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1493 users visited in the last hour