User: Danielk

gravatar for Danielk
Danielk540
Reputation:
540
Status:
Trusted
Location:
Karolinska Institutet, Stockholm, Sweden
Last seen:
1 year, 4 months ago
Joined:
6 years, 6 months ago
Email:
d****************@gmail.com

Posts by Danielk

<prev • 75 results • page 1 of 8 • next >
0
votes
2
answers
899
views
2
answers
Answer: A: Obtaining bam files from ICGC or TCGC
... @h.hasani, The reason you need approval to access the BAMs is that they are considered personal data much like names, social security numbers and addresses. Therefore, you need to apply for access with information on what you will do with the data, and local data handling policies. This applies ...
written 23 months ago by Danielk540
0
votes
3
answers
2.1k
views
3
answers
Comment: C: Minimum requirements for a laptop for RNA-seq
... +1 for server + craptop.  ...
written 2.1 years ago by Danielk540
0
votes
1
answer
2.9k
views
1
answers
Comment: C: htslib C API: getting reads from region
... What function calls here come from samtools.h? ...
written 2.1 years ago by Danielk540
3
votes
4
answers
964
views
4
answers
Answer: A: how to quickly extract sequence from genome positions
... samtools faidx genome.fasta chr1:10001-10002 also does this.  ...
written 2.2 years ago by Danielk540
0
votes
1
answer
2.0k
views
1
answers
Comment: C: Merge VCF files using bcftools merge
... Are the index file .tbi present? ...
written 2.3 years ago by Danielk540
0
votes
2
answers
1.7k
views
2
answers
Comment: C: Finding the iIllumina index read from raw fastq file
... Sorry, I don't follow. What is `XXXPSDE`? ...
written 2.4 years ago by Danielk540
3
votes
2
answers
1.7k
views
2
answers
Answer: A: Finding the iIllumina index read from raw fastq file
... It depends on how the raw fastq file was generated form the more raw bcl files. It's sometimes available in the name of the read, and sometimes it's supplied as a separate fastq file with the index read.  ...
written 2.4 years ago by Danielk540
2
votes
5
answers
19k
views
5
answers
Comment: C: The New Grch38 Human Genome Browser Has Arrived!
... So these discussions seems to have failed.  $ curl -s ftp://ftp.ensembl.org/pub/release-81/gtf/homo_sapiens/Homo_sapiens.GRCh38.81.gtf.gz|gzip -cd|head #!genome-build GRCh38.p3 #!genome-version GRCh38 #!genome-date 2013-12 #!genome-build-accession NCBI:GCA_000001405.18 #!genebuild-last-updated 201 ...
written 2.5 years ago by Danielk540
1
vote
2
answers
2.6k
views
2
answers
Comment: C: BICseq R package problem
... We've stopped using it completely because of this issue.  ...
written 2.5 years ago by Danielk540
0
votes
4
answers
886
views
4
answers
Comment: C: error in bam to bed
... It looks like `eg11_highquality_sorted.bam` isn't present in the current directory (`/usr/data/nfs6/izadi`).  ...
written 2.5 years ago by Danielk540

Latest awards to Danielk

Good Question 20 months ago, asked a question that was upvoted at least 5 times. For Capping coverage in bam file
Popular Question 22 months ago, created a question with more than 1,000 views. For Capping coverage in bam file
Good Question 2.1 years ago, asked a question that was upvoted at least 5 times. For How To Use Maf Files In The Absolute Software
Teacher 2.2 years ago, created an answer with at least 3 up-votes. For A: Preferred Tools For Making Analysis Pipeline Flowchart ?
Appreciated 2.5 years ago, created a post with more than 5 votes. For How To Use Maf Files In The Absolute Software
Student 2.5 years ago, asked a question with at least 3 up-votes. For Abra for indel realignment
Teacher 2.9 years ago, created an answer with at least 3 up-votes. For A: Preferred Tools For Making Analysis Pipeline Flowchart ?
Student 3.2 years ago, asked a question with at least 3 up-votes. For How To Use Maf Files In The Absolute Software
Popular Question 3.3 years ago, created a question with more than 1,000 views. For Samtools Mpileup On Single Bam With Multiple Samples
Appreciated 3.8 years ago, created a post with more than 5 votes. For How To Use Maf Files In The Absolute Software
Voter 3.8 years ago, voted more than 100 times.
Supporter 3.9 years ago, voted at least 25 times.
Student 4.0 years ago, asked a question with at least 3 up-votes. For How To Use Maf Files In The Absolute Software
Popular Question 6.5 years ago, created a question with more than 1,000 views. For Samtools Mpileup On Single Bam With Multiple Samples

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 730 users visited in the last hour