User: Prakki Rama

gravatar for Prakki Rama
Prakki Rama2.1k
Reputation:
2,130
Status:
Trusted
Location:
Singapore
Website:
https://asearchforsolu...
Twitter:
Prakki_Rama
Scholar ID:
Google Scholar Page
Last seen:
15 hours ago
Joined:
6 years, 7 months ago
Email:
r***********@gmail.com

Bioinformatics Research Associate 

Linkedin: http://tiny.cc/fn92qy

Posts by Prakki Rama

<prev • 400 results • page 1 of 40 • next >
0
votes
0
answers
1.4k
views
0
answers
Comment: C: Standalone BLAST error: UnexpectedTagClassByte
... Thank you very much! You saved my valuable time by posting your Fix. ...
written 6 days ago by Prakki Rama2.1k
0
votes
8
answers
21k
views
8
answers
Comment: C: Fetching Genbank Entries For List Of Accession Numbers.
... It's not fast, but works. ...
written 10 weeks ago by Prakki Rama2.1k
1
vote
5
answers
1.8k
views
5
answers
Comment: C: Assigning subject to query based on coverage from blast output file
... a small correction after 4 years : `awk '{print $0 "\t" $3-$2}'` from above should be `awk '{print $0 "\t" $3-$2+1}'`. Otherwise, the length of all the alignments will be 1bp less. ...
written 11 weeks ago by Prakki Rama2.1k
0
votes
2
answers
3.3k
views
2
answers
Comment: C: How To Replace Sequence Id'S In A Text (Tree) File With Taxonomy Strings From A
... perfect! Thanks much! ...
written 12 weeks ago by Prakki Rama2.1k
0
votes
0
answers
191
views
0
answers
Comment: C: Search only plasmids from NT database using local BLAST
... Thanks erwan. Having a list of ids, would be straight forward task to extract and generate database, run blast. But actually, I do not have a list of plasmid ids. Basically, I just wanted to see what plasmids exists in my assembly. I am trying out the V5 database..Download in progress...:) ...
written 3 months ago by Prakki Rama2.1k
0
votes
0
answers
191
views
0
answers
Comment: C: Search only plasmids from NT database using local BLAST
... Thank you for reply @erwan.scaon. I will try the above link and come back. ...
written 3 months ago by Prakki Rama2.1k
1
vote
0
answers
191
views
0
answers
Search only plasmids from NT database using local BLAST
... Hi all, May I know, if there is a way to search for only plasmids instead of whole NT database locally? Many thanks in advance. ...
ncbi assembly nt plasmid written 3 months ago by Prakki Rama2.1k
0
votes
1
answer
3.2k
views
1
answers
Comment: C: Finding Plasmids
... The link for plasmid database has been updated to: ftp://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Plasmids/ ...
written 3 months ago by Prakki Rama2.1k
0
votes
7
answers
16k
views
7
answers
Comment: C: how to convert a long fasta-file into many separate single fasta sequences
... one of the best one-liners to split a fasta file. ...
written 7 months ago by Prakki Rama2.1k
0
votes
3
answers
3.1k
views
3
answers
Comment: C: Allele Depth (~ Dp4) Values For All (Including Multi-Allelic Alt) Possible Allel
... @Rm. Hi. Sometimes your script does not match the depth count in the vcf. For example, NZ_CP024834.1 5388732 . G A 222 . DP=55;VDB=0.0130;AF1=1;AC1=2;DP4=0,0,21,32;MQ=60;FQ=-187 GT:PL:DP:SP:GQ 1/1:255,160,0:53:0:99 using above script: NZ_CP024834.1 5388732 G 21 33 0 0 0 0 0 0 21+ 33 sum ...
written 7 months ago by Prakki Rama2.1k

Latest awards to Prakki Rama

Great Question 27 days ago, created a question with more than 5,000 views. For Meaning of Chromatin state
Teacher 9 weeks ago, created an answer with at least 3 up-votes. For A: [Noob Doubt] Mapping and Annotation.
Popular Question 7 months ago, created a question with more than 1,000 views. For How to generate AGP format using contigs and scaffolds
Popular Question 8 months ago, created a question with more than 1,000 views. For How to generate AGP format using contigs and scaffolds
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: [Noob Doubt] Mapping and Annotation.
Popular Question 10 months ago, created a question with more than 1,000 views. For How to generate AGP format using contigs and scaffolds
Epic Question 12 months ago, created a question with more than 10,000 views. For Aligning Reads To A Reference Transcriptome
Popular Question 13 months ago, created a question with more than 1,000 views. For How to generate AGP format using contigs and scaffolds
Appreciated 16 months ago, created a post with more than 5 votes. For A: Assessing The Quality Of De Novo Assembled Data
Student 16 months ago, asked a question with at least 3 up-votes. For Assessing The Quality Of De Novo Assembled Data
Epic Question 16 months ago, created a question with more than 10,000 views. For Assessing The Quality Of De Novo Assembled Data
Librarian 16 months ago, created a post with more than 10 bookmarks. For Assessing The Quality Of De Novo Assembled Data
Popular Question 17 months ago, created a question with more than 1,000 views. For Which peak is homozygous and heterozygous in Kmer plot for Genome estimation
Popular Question 17 months ago, created a question with more than 1,000 views. For Meaning of Chromatin state
Popular Question 18 months ago, created a question with more than 1,000 views. For #Reads Per Contig Information From Assemblies Other Than Velvet
Commentator 18 months ago, created a comment with at least 3 up-votes. For C: samtools idxstats on indexed BAM failed
Great Question 19 months ago, created a question with more than 5,000 views. For Minimum Or Optimal Rpkm Value To Find If A Transcript Is Significant
Prophet 23 months ago, created a post with more than 20 followers. For Assessing The Quality Of De Novo Assembled Data
Popular Question 23 months ago, created a question with more than 1,000 views. For Quickest way to extract subset of reads from huge fastq file
Scholar 2.1 years ago, created an answer that has been accepted. For A: RNAseq: remove contaminants before or after mapping reads?
Appreciated 2.1 years ago, created a post with more than 5 votes. For Assessing The Quality Of De Novo Assembled Data
Librarian 2.1 years ago, created a post with more than 10 bookmarks. For Assessing The Quality Of De Novo Assembled Data
Epic Question 2.2 years ago, created a question with more than 10,000 views. For Number of mapped reads from BAM file
Popular Question 2.2 years ago, created a question with more than 1,000 views. For Estimating Error Rate In Sequencing Data

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 972 users visited in the last hour