Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Tutorials
Tools
Jobs
Forum
Planet
All »
Home
Log In

User: Lila M

gravatar for Lila M
Lila M • 390
Reputation:
390
Status:
Trusted
Location:
UK
Last seen:
18 hours ago
Joined:
3 years, 1 month ago
Email:
p*************@gmail.com

Posts by Lila M

<prev • 263 results • page 1 of 27 • next >
0
votes
0
answers
75
views
0
answers
Comment: C: how can I get the coverage over introns only in a RNA-seq experiment?
... both , coverage plot and number of reads mapping to INTRONS will be nice :) ...
written 3 days ago by Lila M • 390
0
votes
0
answers
75
views
0
answers
how can I get the coverage over introns only in a RNA-seq experiment?
... Hi everybody, I've just wondering the best way to get the coverage over introns (only) in RNA-seq experiments (human genome) My first approach is to download the complete intron list from UCSC. Then I could get the overlaps (using bedtools intersect or samithing similar) with each bed file. Once I ...
introns coverage rna-seq written 4 days ago by Lila M • 390
0
votes
1
answer
163
views
1
answers
Comment: C: Problems running VC GATK: SAM/BAM/CRAM file dedup.bam is malformed
... And how can I get this info? ...
written 7 weeks ago by Lila M • 390
0
votes
1
answer
163
views
1
answers
Comment: C: Problems running VC GATK: SAM/BAM/CRAM file dedup.bam is malformed
... Not at all with samtools view -H file.bam @HD VN:1.4 SO:coordinate @SQ SN:chr1 LN:248956422 @SQ SN:chr2 LN:242193529 @SQ SN:chr3 LN:198295559 @SQ SN:chr4 LN:190214555 but nothing comes up with: samtools view -H file.bam | grep '^@RG' does it means that my BAM file do ...
written 7 weeks ago by Lila M • 390
9
votes
1
answer
163
views
5 follow
1
answer
Problems running variant calling (VC) GATK: SAM/BAM/CRAM file dedup.bam is malformed
... Hi everybody, I'm trying to carry out some VC analysis, but I'm not very advanced at it, so I am a bit struggle... For my RNA-seq samples, I've run the following command lines: #1 Mark duplicates ls *bam | xargs -I {} -n 1 java -jar picard.jar MarkDuplicates I={} O={}.dedup M={}.metrix.t ...
gatk vc rna-seq written 7 weeks ago by Lila M • 390
0
votes
5
answers
233
views
5
answers
Comment: C: How can I get only the rows when for the converge points : - +
... Thank you! I've never heard about this toturial before. ...
written 10 weeks ago by Lila M • 390
0
votes
5
answers
233
views
5
answers
Comment: C: How can I get only the rows when for the converge points : - +
... thank you for the update! ...
written 10 weeks ago by Lila M • 390
0
votes
5
answers
233
views
5
answers
Comment: C: How can I get only the rows when for the converge points : - +
... Do you know any tutorial or useful documentation to learn awk? I know that should be a separate question but I hope could be permitted ...
written 10 weeks ago by Lila M • 390
1
vote
5
answers
233
views
5
answers
Comment: C: How can I get only the rows when for the converge points : - +
... It works as expected, thank you very much. `awk` is very very helpful to solve this kinds of problems, but for me takes a while to learn it... ...
written 10 weeks ago by Lila M • 390
20
votes
5
answers
233
views
9 follow
5
answers
How can I get only the rows when for the converge points : - +
... Hi everybody, Maybe this is more a programming question related, but any advice could be very handy. I'm trying to select the rows when the 4th has convergence points ( **-** following by **+**) in this data sets: chr1 1275000 1284999 + chr1 1285000 1294999 - chr1 1295000 1304999 - ...
R convergence points written 10 weeks ago by Lila M • 390 • updated 10 weeks ago by Alex Reynolds ♦ 26k

Latest awards to Lila M

Popular Question 4 weeks ago, created a question with more than 1,000 views. For how to create a minimun spanning tree with R
Popular Question 7 weeks ago, created a question with more than 1,000 views. For how to create a minimun spanning tree with R
Popular Question 10 weeks ago, created a question with more than 1,000 views. For how to create a minimun spanning tree with R
Popular Question 10 weeks ago, created a question with more than 1,000 views. For How to convert bedgraph to bigwig?
Popular Question 12 weeks ago, created a question with more than 1,000 views. For how to create a minimun spanning tree with R
Popular Question 3 months ago, created a question with more than 1,000 views. For how to create a minimun spanning tree with R
Popular Question 3 months ago, created a question with more than 1,000 views. For How to convert bedgraph to bigwig?
Popular Question 3 months ago, created a question with more than 1,000 views. For how to compare 2 fasta sequences with perl
Popular Question 9 months ago, created a question with more than 1,000 views. For How to convert bedgraph to bigwig?
Popular Question 9 months ago, created a question with more than 1,000 views. For Looking for a ClueGO (cytoscape) tutorial
Popular Question 9 months ago, created a question with more than 1,000 views. For how to compare 2 fasta sequences with perl
Popular Question 9 months ago, created a question with more than 1,000 views. For should I merge fastq files for different lanes before do QC?
Popular Question 9 months ago, created a question with more than 1,000 views. For How to annotate TTS or TES
Voter 12 months ago, voted more than 100 times.
Popular Question 15 months ago, created a question with more than 1,000 views. For how to compare 2 fasta sequences with perl
Popular Question 15 months ago, created a question with more than 1,000 views. For How to convert bedgraph to bigwig?
Scholar 18 months ago, created an answer that has been accepted. For A: How to plot a heat map for the top 30 differentially expressed genes.
Centurion 20 months ago, created 100 posts.
Supporter 20 months ago, voted at least 25 times.
Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1192 users visited in the last hour