User: blur

gravatar for blur
blur140
Reputation:
140
Status:
Trusted
Location:
European Union
Last seen:
2 days, 5 hours ago
Joined:
5 years, 9 months ago
Email:
b***@pazcorp.com

Posts by blur

<prev • 150 results • page 1 of 15 • next >
1
vote
1
answer
39
views
1
answer
htseq-count without GTF?
... Hi, I have a genomic alignment for IP vs. input files. I want to count the coverage of an entire feature to do FPKM of the IP vs. input to see if there was an enrichment after IP. The features I want to check are NOT genes, but areas in the genome like promotors, enhancers and so on, There is no GT ...
htseq count fpkm htseq-count gtf written 2 days ago by blur140 • updated 2 days ago by ATpoint40k
0
votes
0
answers
89
views
0
answers
How do I get a histone-to-gene table/map to correlate with genes?
... Hi, I have a list of genes and I'd like to check which histones they correlate to. As far as I know it is expected to be negatively correlated with one modified histone and therefore I'd expect it to be similarly positively correlated with a few others. The thing is - I don't know what sort of lis ...
histone written 6 weeks ago by blur140
0
votes
1
answer
113
views
1
answers
Comment: C: GFF3 transcript name
... Thanks! This is the link I needed :) ...
written 7 weeks ago by blur140
0
votes
1
answer
113
views
1
answers
Comment: C: GFF3 transcript name
... Human built 38 The purpose is literally to find the transcript names in the gff3 format :) ...
written 7 weeks ago by blur140
1
vote
1
answer
113
views
1
answer
GFF3 transcript name
... Hi, Where can I download GFF3 format transcript names? or the full gff3 files I tried: ftp://ftp.ensembl.org website (it doesn't seem to work at all at the moment) Is there an alternative? Thanks ...
gff3 gff transcript resource written 7 weeks ago by blur140
0
votes
2
answers
208
views
2
answers
Comment: C: R package or tool to draw peaks on chromosomes (like in UCSC)
... looks great, thanks! ...
written 8 weeks ago by blur140
1
vote
2
answers
208
views
2
answers
R package or tool to draw peaks on chromosomes (like in UCSC)
... Hi, I uploaded peaks into the UCSC genome browser and I can see all of the peaks on the full chromosome. Now I'd like to draw the entire genome, with each chromosome showing the peaks throughout to get a good visual idea of the peaks distribution on the chromosomes. I am looking fir a tool that doe ...
R visualization ucsc written 8 weeks ago by blur140 • updated 8 weeks ago by bernatgel2.7k
0
votes
1
answer
112
views
1
answers
Comment: C: MSA program that allows collpase of identical reads
... I found a way - I used the fastx program http://hannonlab.cshl.edu/fastx_toolkit/commandline.html#fastx_collapser_usage ...
written 10 weeks ago by blur140
0
votes
1
answer
112
views
1
answers
Comment: C: MSA program that allows collpase of identical reads
... This seems close to what I need - but I also need to be able to count the no. of duplicates per type and I can't seem to find this option in the manual... The endpoint is to count the number of each as per the total reads available. ...
written 10 weeks ago by blur140
0
votes
1
answer
112
views
1
answer
MSA program that allows collpase of identical reads
... Hi, I want to create an MSA and then collapse the identical reads, so that I can see the different TYPES of reads in my MSA. Any ideas what program allows such options? Thanks, ...
multi sequence alignmen msa collapse written 10 weeks ago by blur140 • updated 10 weeks ago by Mensur Dlakic6.9k

Latest awards to blur

Popular Question 6 weeks ago, created a question with more than 1,000 views. For UCSC peak calling - weird results
Popular Question 7 weeks ago, created a question with more than 1,000 views. For UCSC peak calling - weird results
Popular Question 7 weeks ago, created a question with more than 1,000 views. For where can I find more data about --outSAMattributes All?
Popular Question 4 months ago, created a question with more than 1,000 views. For UCSC peak calling - weird results
Popular Question 4 months ago, created a question with more than 1,000 views. For Bcftools magic string
Popular Question 4 months ago, created a question with more than 1,000 views. For UCSC peak calling - weird results
Popular Question 4 months ago, created a question with more than 1,000 views. For Bcftools magic string
Popular Question 5 months ago, created a question with more than 1,000 views. For cutadapt --cut option for paired-end reads?
Great Question 7 months ago, created a question with more than 5,000 views. For Generate consensus from BAM file
Popular Question 7 months ago, created a question with more than 1,000 views. For cutadapt --cut option for paired-end reads?
Popular Question 7 months ago, created a question with more than 1,000 views. For Bcftools magic string
Popular Question 8 months ago, created a question with more than 1,000 views. For Generate consensus from BAM file
Popular Question 8 months ago, created a question with more than 1,000 views. For bcftools soft filters (-s)
Popular Question 15 months ago, created a question with more than 1,000 views. For Generate consensus from BAM file
Popular Question 15 months ago, created a question with more than 1,000 views. For MACS2 and duplicates
Popular Question 15 months ago, created a question with more than 1,000 views. For bcftools soft filters (-s)
Popular Question 15 months ago, created a question with more than 1,000 views. For fastq_quality_trimmer: Premature End-Of-File
Popular Question 20 months ago, created a question with more than 1,000 views. For Generate consensus from BAM file
Popular Question 20 months ago, created a question with more than 1,000 views. For uneven paired end reads in bowtie
Popular Question 20 months ago, created a question with more than 1,000 views. For BWA vs. bowtie
Popular Question 20 months ago, created a question with more than 1,000 views. For cutadapt --cut option for paired-end reads?
Popular Question 20 months ago, created a question with more than 1,000 views. For MACS2 and duplicates
Popular Question 20 months ago, created a question with more than 1,000 views. For FASTX error - quality score
Popular Question 23 months ago, created a question with more than 1,000 views. For The bed12 format
Popular Question 23 months ago, created a question with more than 1,000 views. For Bam to WIG

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1014 users visited in the last hour