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28 results • Page
1 of 1
Sort: Rank
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Votes
Replies
0
votes
0
replies
5
views
Information on sequin RNA spike in standards
Sequin
Spike-in
RNA-seq
standards
5 minutes ago by
akainth
• 0
0
votes
9
replies
68
views
Trying to edit VCF file
snpsaurus
VCF
R
bcftool
cluster
3 minutes ago by
peavy
• 0
0
votes
0
replies
14
views
Visualizing Graph Alignment Format via minigraph
graph
gaf
minigraph
alignment
1 hour ago by
ivazirabad
• 0
0
votes
1
reply
21
views
Get relationships and hierarchies for GO terms
GO-terms
Gene-onthology
updated 40 minutes ago by
Buffo
★ 2.2k • written 1 hour ago by
DanielEB_fisk
• 0
0
votes
1
reply
277
views
How to quantification proteomics data
proteomics
updated 30 minutes ago by
eqoa45
• 0 • written 19 months ago by
LeeLee
▴ 10
1
vote
4
replies
71
views
Is hg38 on the multiz 30-way alignment inaccurate?
maf
UCSC
PHAST
multiz
31 minutes ago by
Daniel
▴ 30
0
votes
2
replies
1.3k
views
How to perform statistical analysis of label free experiment using results from Proteome Discoverer?
Proteome-Discoverer
Label-Free
Proteomics
updated 2 hours ago by
Ram
39k • written 4.5 years ago by
k2bhide
▴ 80
0
votes
0
replies
23
views
Label free quantification in Proteome discoverer software
proteomics
quantification
spectrometry
shotgun
2 hours ago by
eqoa45
• 0
0
votes
1
reply
69
views
CHiP-Seq Questions
DiffBind
CHiP-Seq
updated 3 hours ago by
jared.andrews07
★ 14k • written 4 hours ago by
B.N.
• 0
1
vote
0
replies
30
views
How to predict gene amplification from RNAseq and ATACseq data?
amplification
ATAC
4 hours ago by
Dan
▴ 120
0
votes
0
replies
44
views
Diff Bind Questions
DiffBind
CHiP-Seq
updated 4 hours ago by
Ram
39k • written 4 hours ago by
B.N.
• 0
1
vote
2
replies
72
views
hisat2 Error 137
hisat2
RNA-seq
1 hour ago by
Forough
▴ 10
0
votes
0
replies
33
views
Error occured at the PHG imputation step: allele in genotype not in the variant context
PHG
Imputation
PracticalHaplotypeGraph
Haplotype
5 hours ago by
xeod21
• 0
0
votes
2
replies
91
views
Embryo transcriptome
database
transcriptome
SRA
updated 4 hours ago by
Basti
★ 1.5k • written 6 hours ago by
firefox91
• 0
1
vote
3
replies
102
views
Obtain a --gene-trans-map file after rnaSPAdes
rnaSPAdes
Trinity
5 hours ago by
UserA
• 0
0
votes
0
replies
38
views
How to extract only neutral markers from low-coverage whole genome sequencing?
low-coverage
whole-genome-sequencing
updated 4 hours ago by
Ram
39k • written 7 hours ago by
beausoleilmo
▴ 530
0
votes
4
replies
122
views
Difference between USCS exon coordinates and ensembl
exons
Ensembl
4 hours ago by
amy__
▴ 50
0
votes
0
replies
47
views
Why sone miRNAs are not present in TCGA data
TCGA
miRNA
RNA-seq
9 hours ago by
nicolo.gualandi
• 0
0
votes
0
replies
44
views
Prediction of altrered metabolites from altered gene expression
Gene
Metabolites
11 hours ago by
english.server
▴ 290
0
votes
3
replies
158
views
variant allelic fraction
vep
updated 4 hours ago by
Ram
39k • written 23 hours ago by
malm
• 0
0
votes
1
reply
134
views
Pairwise Alignment
Pairwise-Alignment
updated 4 hours ago by
Ram
39k • written 1 day ago by
Fatemeh
• 0
0
votes
2
replies
186
views
featurecounts not working on mirbase annotation file
usegalaxy
miRNA-seq
just now by
demoraesdiogo2017
▴ 90
1
vote
2
replies
198
views
Combination of ROC CURVE
roccurve
R
AUC
22 hours ago by
Maria17
▴ 20
2
votes
4
replies
819
views
Downloading all the heteroComplex protein PDB IDs in RCSB Protein Data Bank
python
biopython
updated 46 minutes ago by
Ram
39k • written 3.6 years ago by
Christian
• 0
1
vote
2
replies
519
views
How to mine plant-inducible promoter (PIP) box from Xanthomonas genus genome?
assembly
gene
genome
next-gen
updated 52 minutes ago by
Ram
39k • written 3.6 years ago by
Kumar
▴ 100
0
votes
0
replies
1.0k
views
Assembly error on Ipyrad step 3: ERROR IPyradError(None)
rad-seq
ipyrad
updated 57 minutes ago by
Ram
39k • written 3.6 years ago by
mgpastos
▴ 10
0
votes
0
replies
604
views
Pan-genome Bioinformatics Workshops?
pan-genome
workshop
updated 2 hours ago by
Ram
39k • written 3.7 years ago by
cassondranewman
• 0
0
votes
2
replies
1.0k
views
Find most upregulated genes in one library?
EdgeR
RNA-Seq
Rsubread
updated 2 hours ago by
Ram
39k • written 3.7 years ago by
williams.damon26
▴ 10
28 results • Page
1 of 1
Recent Votes
A: Can STAR work with compressed .gz FASTQ input?
Comment: VEP tab/vcf - Different output
Answer: Perl. How to retrieve data until a keyword in GenBank?
Answer: Perl script running slow with big files
A: Forward And Reverse Strand Conventions
Comment: hisat2 Error 137
Comment: NCBI API, Perl
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Recent Replies
Comment: featurecounts not working on mirbase annotation file
by
demoraesdiogo2017
▴ 90
export FC_PATH=$(command -v featureCounts | sed 's@/bin/featureCounts$@@') && featureCounts -a ${FC_PATH}/annotation/mm10_RefSeq_exon…
Comment: Trying to edit VCF file
by
peavy
• 0
Got something to work after walking back through it and deleting them from that file manually so thanks!
Comment: NCBI API, Perl
by
GenoMax
129k
For completeness, using web interface of `datasets`: https://www.ncbi.nlm.nih.gov/datasets/gene/ ![web][1] [1]: /media/images/1dfc4de4…
Answer: Bedtools problem : It looks as though you have less than 3 columns at line: 1.
by
Michael
• 0
I ran into this issue. It was caused by the FASTA data being included in the GFF3 file I was working with. I truncated the file starting a…
Comment: NCBI API, Perl
by
MirianT_NCBI
▴ 590
Hi, Following Genomax' suggestion, you can use NCBI Datasets. I used the IDs you posted to create a list. ``` LOC105370256 LOC105377806 LO…
Comment: How to quantification proteomics data
by
eqoa45
• 0
Hello, can I ask how did you manage the solution?
Comment: Perl. How to retrieve data until a keyword in GenBank?
by
Fungi-Beware!
▴ 10
Doing it this way outputs the info, but it doesn't preserve the paragraphs (all the info gets smashed into a single line). Is there a way …
Comment: Is hg38 on the multiz 30-way alignment inaccurate?
by
Daniel
▴ 30
I am referring to chr2.maf which I found here (last updated 2017): https://hgdownload.soe.ucsc.edu/goldenPath/hg38/multiz30way/maf/ PHAST …
Answer: Spatial transcriptomics without the h5 file
by
Arvin
• 0
If you still have the problem, I have stablished a code for you to read any spatial expression using gene expression and spatial coordinate…
Comment: Trying to edit VCF file
by
peavy
• 0
I'm aware. I manually typed each one but those 3 when I submitted. I actually made that mistake the first time around and only kept the 3 I…
Comment: Trying to edit VCF file
by
Pierre Lindenbaum
154k
option -S in bcftools view is for the samples you want to KEEP.
Comment: Get relationships and hierarchies for GO terms
by
Buffo
★ 2.2k
Something like [GO enrichment analysis][1]? [1]: http://geneontology.org/docs/go-enrichment-analysis/
Comment: Trying to edit VCF file
by
peavy
• 0
yes. They should be removed I imagine?
Comment: Is hg38 on the multiz 30-way alignment inaccurate?
by
Maximilian Haeussler
★ 1.5k
Can you provide an example? Which MAF file are you referring to, on the UCSC and Ensembl side. I can imagine a dozen different things that …
Comment: Trying to edit VCF file
by
Pierre Lindenbaum
154k
are they present in Fall22C.txt ?
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