User: dec986
dec986 • 100
- Reputation:
- 100
- Status:
- Trusted
- Location:
- United States
- Last seen:
- 19 hours ago
- Joined:
- 3 years, 5 months ago
- Email:
- d*****@gmail.com
Posts by dec986
<prev
• 89 results •
page 1 of 9 •
next >
0
votes
1
answer
287
views
1
answers
... Is there any official documentation for this? I can't find anything in google searches or in the STAR manual ...
written 2 days ago by
dec986 • 100
2
votes
0
answers
80
views
0
answers
... hello,
I am looking for more thorough documentation than what is provided for samtools stats http://www.htslib.org/doc/samtools.html because I have no idea what typical ranges are for lots of these values, specifically the ones that show up with "SN"
For example, what is a good quality score? What ...
written 12 days ago by
dec986 • 100
3
votes
0
answers
124
views
0
answers
... I have some aligned BAM files and I want to calculate the sequencing depth, but numerous google searches have not produced any results. I could generate a tool by myself, but I want to use something which has been used by others so that there is less room for error.
...
written 16 days ago by
dec986 • 100
3
votes
1
answer
94
views
1
answer
... Hello, I have been seeing many transcripts that look like `ENST00000376701.4` and it matches an `ENSG...15285.10`
my question is, What is the significance of numbers coming after the decimal point? Can they be safely ignored? I ask because I am giving a list of transcripts without the decimals i ...
0
votes
5
answers
4.8k
views
5
answers
... this does not capture the Excel output. How can this be modified so the 3 excel files can be saved? ...
written 10 weeks ago by
dec986 • 100
0
votes
0
answers
159
views
0
answers
... Hello,
I have been using Gorilla gene ontology with help from a great post on BioStars https://www.biostars.org/p/70064/
However, a colleague wishes to use 8 separate analyses listed on http://software.broadinstitute.org/gsea/msigdb/index.jsp for each comparison in our project
I have a *lot* of a ...
written 3 months ago by
dec986 • 100
0
votes
2
answers
350
views
2
answers
... For my particular purpose, I downloaded GSE96075 and compared STAR against HISAT2. STAR's extra reads could indeed be false positives, but I had no way of verifying that. I was satisfied because the read length was fairly long (~198 nucleotides) so the slightly higher mismatch mean was acceptable. ...
written 3 months ago by
dec986 • 100
3
votes
2
answers
350
views
2
answers
... Through my own experimentation, STAR gives the best balance between selectivity and sensitivity. However, the mismatch rate is a little higher than HISAT2. I don't think that this is significant. HISAT2 comes as 2nd place, as it gets far fewer reads (sometimes tens of thousands with similar setti ...
written 3 months ago by
dec986 • 100
0
votes
0
answers
489
views
0
answers
... how do you mean 'truncated'? could you provide a specific example, so if something is wrong, I can fix it? ...
written 4 months ago by
dec986 • 100
3
votes
0
answers
489
views
0
answers
... ## Introduction ##
I would like to show how to use a new program to identify differentially methylated regions (DMRs) from bisulfite sequencing data, whether whole-genome or RRBS. This tutorial won't be very long, as the program is remarkably easy to use, and doesn't require learning a programming ...
written 4 months ago by
dec986 • 100
Latest awards to dec986
Popular Question
10 weeks ago,
created a question with more than 1,000 views.
For Installation of Bcl2Fastq Fails
Popular Question
12 weeks ago,
created a question with more than 1,000 views.
For Installation of Bcl2Fastq Fails
Teacher
3 months ago,
created an answer with at least 3 up-votes.
For A: [Opinion] - What alignment software do you use?
Popular Question
4 months ago,
created a question with more than 1,000 views.
For Installation of Bcl2Fastq Fails
Popular Question
4 months ago,
created a question with more than 1,000 views.
For Installation of Bcl2Fastq Fails
Popular Question
5 months ago,
created a question with more than 1,000 views.
For Installation of Bcl2Fastq Fails
Popular Question
6 months ago,
created a question with more than 1,000 views.
For Installation of Bcl2Fastq Fails
Scholar
8 months ago,
created an answer that has been accepted.
For A: Alignment with STAR produces unique bam files, but identical output from bedtool
Popular Question
15 months ago,
created a question with more than 1,000 views.
For Installation of Bcl2Fastq Fails
Popular Question
15 months ago,
created a question with more than 1,000 views.
For R programming: Keep Heatmap Items Within Image Frame
Popular Question
15 months ago,
created a question with more than 1,000 views.
For Conversion between .bedGraph or .bw to 7-column format
Popular Question
15 months ago,
created a question with more than 1,000 views.
For edgeR: no residual df: Cannot estimate dispersion
Supporter
15 months ago,
voted at least 25 times.
Popular Question
20 months ago,
created a question with more than 1,000 views.
For DESeq2 comparison failure
Scholar
2.2 years ago,
created an answer that has been accepted.
For A: Alignment with STAR produces unique bam files, but identical output from bedtool
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 701 users visited in the last hour