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90,513 results • Page
1 of 1811
Sort: Rank
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Votes
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0
votes
0
replies
5
views
SNPs with extremely low P-value
heritability
SNP
LDSC
18 minutes ago by
Apprentice
▴ 50
0
votes
0
replies
4
views
gRNA concatamer - will it work ?
gRNA
CRISPR
PAM
36 minutes ago by
Rajesh
• 0
0
votes
1
reply
28
views
Understanding the ColData Matrix
RNA-SEQ
R
Micheal_Love
DESEQ2
updated 1 hour ago by
jared.andrews07
9.3k • written 5 hours ago by
raisamathenge
▴ 10
0
votes
0
replies
17
views
How to retrieve protein sequence from gene ID and output a fasta file
ncbi
gene
protein
biopython
entrez
2 hours ago by
minifoog
• 0
0
votes
0
replies
80
views
Job:
Bioinformatician/Programmer at the University of Pennsylvania
pipelines
programmer
bioinformatician
python
r
3 hours ago by
adamnaj
• 0
580
votes
155
replies
64k
views
89 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
handbook
tutorial
training
News
updated 6 days ago by
Biostar
10 • written 4.4 years ago by
Istvan Albert
87k
0
votes
0
replies
44
views
Job:
Bioinformatician at Turbine / Hungary
proteomics
cancerreserach
singlecell
python
r
3 hours ago by
timea.volenter
• 0
0
votes
0
replies
20
views
panel of normals for mutect2
mutect2
gatk
NGS
PoN
somatic
4 hours ago by
lait
▴ 160
0
votes
1
reply
38
views
format conversion using OpenBabel
software
updated 5 hours ago by
Mensur Dlakic
★ 10k • written 6 hours ago by
roybatty269
• 0
0
votes
0
replies
24
views
How to compare enrichment scores?
enrichment
scores
6 hours ago by
fpizzagalli
• 0
0
votes
0
replies
23
views
Should I take FDR < 0.2 for differentially abundant bacteria found in meta-analysis random effect ?
FDR
Microbiome
6 hours ago by
deep771992chanda
▴ 30
0
votes
1
reply
56
views
Program for predicting RNA sequences that may bind to a protein Domain
protein
Binding
domain
RNA
updated 6 hours ago by
Mensur Dlakic
★ 10k • written 10 hours ago by
noahhelton98
▴ 10
2
votes
5
replies
253
views
Understanding TCGA's ASCAT copy number data
tcga
ascat
copy number
updated 7 hours ago by
Zhenyu Zhang
▴ 270 • written 6 weeks ago by
loughrae
▴ 70
0
votes
1
reply
95
views
GDC Data Query
RNA-Seq
updated 7 hours ago by
Zhenyu Zhang
▴ 270 • written 29 days ago by
p20170409
• 0
1
vote
3
replies
65
views
Redundancy reduction of de novo transcriptome assemblies with Compacta?
de-novo
transcriptome
redundancy-reduction
updated 8 hours ago by
GenoMax
99k • written 8 hours ago by
Dunois
▴ 620
0
votes
5
replies
119
views
Cellranger count.srun issues
cellranger
srun
updated 8 hours ago by
GenoMax
99k • written 10 hours ago by
gonzalezb549
• 0
1
vote
1
reply
83
views
Up-to-date GWAS Power Calculator and GWAS power comparison
GWAS
power
updated 10 hours ago by
Kevin Blighe
72k • written 4 days ago by
moxu
▴ 480
1
vote
1
reply
2.2k
views
How to design WGCNA: one analysis over all sample or seperate analysis (using consensus module analysis)?
WGCNA
RNA-seq
updated 10 hours ago by
Kevin Blighe
72k • written 2 days ago by
leesooyeon94
▴ 10
0
votes
1
reply
58
views
Contradiction in Harzard ratio and Log fold change
Foldchange
Cancer
HR
HarzardRatio
LogFC
updated 10 hours ago by
Kevin Blighe
72k • written 1 day ago by
Mran
• 0
0
votes
0
replies
37
views
Refs/tools for protein interactomes
Protein
PSI-MI
Interactome
Orthologs
PPI
9 hours ago by
ian.will
• 0
0
votes
4
replies
108
views
How to plot a image like this.
plot
Bioinformatics
Cancer
R
Genome
1 hour ago by
lincaijin1994
• 0
1
vote
2
replies
97
views
HaplotypeCaller VCF depth is greater than the number of reads in bam
HaplotypeCaller
vcf
gatk
7 hours ago by
wang.yiguan
• 0
0
votes
1
reply
54
views
How to get Data from https://www.orthodb.org/ by the list of UniprotID
Bioinformatics
updated 12 hours ago by
GenoMax
99k • written 19 hours ago by
Trinh
• 0
1
vote
4
replies
89
views
samtools idxstats unplaced contigs
contig
STAR
samtools
updated 12 hours ago by
Martombo
★ 2.7k • written 14 hours ago by
LacquerHed
• 0
0
votes
2
replies
64
views
16S data classification using kraken and centrifuge
centrifuge
16S
classification
kraken
updated 11 hours ago by
cpad0112
15k • written 13 hours ago by
twinklemishra0892
• 0
0
votes
3
replies
88
views
Differential expression analysis with LIMMA results
DGE
5 hours ago by
najioumayma
▴ 10
0
votes
1
reply
51
views
Is there a way to include not conda package/programs to snakemake environment?
Non-Conda_packages
Snakemake
updated 13 hours ago by
Arup Ghosh
2.8k • written 14 hours ago by
lmlukoseviciute
▴ 20
1
vote
1
reply
50
views
How to download all the Zn-binding protein sequences from MetalPDB?
PDB
NCBI
protein
python
database
updated 14 hours ago by
GenoMax
99k • written 14 hours ago by
Kumar
▴ 50
0
votes
0
replies
27
views
How to assemble short DNA sequences using ABYSS?
sequence
multiple-alignment
assembly
14 hours ago by
anikcropscience
▴ 40
0
votes
1
reply
45
views
How to run SPAdes assembler with bam files?
spades
assembler
bam
updated 14 hours ago by
GenoMax
99k • written 15 hours ago by
marongiu.luigi
▴ 560
2
votes
1
reply
56
views
Filter contig fasta file by GC content
contig
gc
updated 15 hours ago by
GenoMax
99k • written 15 hours ago by
victoriahristovaa
• 0
0
votes
0
replies
23
views
Why were all TCGA SVS slides redacted?
slides
slide
tcga
svs
digital
15 hours ago by
ceruleanivy
▴ 30
0
votes
0
replies
26
views
DisGeNET plugin usage error
DisGeNET
phenotype
plugin
vep
14 hours ago by
enes
• 0
0
votes
0
replies
20
views
negative BAF values OH
LOH
cnvkit
BAF
15 hours ago by
John
• 0
0
votes
2
replies
84
views
MASURCA output
masurca
16 hours ago by
kilcdincer
▴ 10
0
votes
0
replies
40
views
Job:
Research assistant in straining engineering at DTU Center of Biosustainability
engineering
coli
Biofoundry
E.
Strain
17 hours ago by
info
▴ 60
0
votes
0
replies
36
views
Job:
Research assistant for yeast natural products project at DTU Biosustain
yeast
preps
DNA
DTU
Biosustain
CRISPR
18 hours ago by
info
▴ 60
1
vote
8
replies
144
views
how to select peaks at not transcribed genes
bedtools
transcribed
peaks
not_trasncribed
updated 14 hours ago by
ATpoint
48k • written 18 hours ago by
Lila M
▴ 910
0
votes
0
replies
33
views
Job:
Analytical chemist (RA) for yeast natural products project at DTU Biosustain
HPLC
yeast
biochemistry
18 hours ago by
info
▴ 60
9
votes
8
replies
136
views
How to combine 2 incomplete GTF
Cufflinks
Cuffcompare
GTF
Cuffmerge
Merge
15 hours ago by
rafaelsolersanblas
▴ 70
5
votes
3
replies
177
views
R command worked yesterday, but stalls today?
R
updated 13 hours ago by
Ram
32k • written 2 days ago by
cthangav
• 0
0
votes
4
replies
151
views
Snakemake with bwa_mem2_mem unable to open the ref file and doesn' t work
bwa-mem2
conda
snakemake
pipeline
17 hours ago by
aka
• 0
3
votes
3
replies
91
views
Extract chromosome 1 - 22 fasta file
fasta
updated 21 hours ago by
shenwei356
5.8k • written 21 hours ago by
shubhamkumbhar420
• 0
0
votes
1
reply
73
views
GATK GenomicsDBImport for consolidate GVCF
GATK
GenomicsDBImport
consolidate
updated 21 hours ago by
Pierre Lindenbaum
135k • written 22 hours ago by
mscpythonstudy
• 0
0
votes
2
replies
93
views
Question about methods monitoring the change from dsDNA/RNA to ssRNA/DNA
RNA
DNA
chaser
Substrate
50 minutes ago by
Sophie
• 0
0
votes
1
reply
90
views
SHAPEIT2 - ERROR "BAD RECOMBINATION RATE"
shapeit2
phasing
updated 20 hours ago by
4galaxy77
▴ 400 • written 1 day ago by
GiantSilverSoy
▴ 20
0
votes
0
replies
80
views
How to download pedigree (SNP's) from cattle
pedigree
data
snp
inference
haplotype
1 day ago by
S. Roa
• 0
0
votes
0
replies
61
views
Job:
Multiple data scientist positions in computational biomedicine
CompBiology
Bioinformatics
MachineLearning
1 day ago by
pandey.gaurav
▴ 130
4
votes
5
replies
151
views
GSEA for RNA_seq dataset
DEGs
GSEA
RNA_seq
updated 17 hours ago by
ATpoint
48k • written 1 day ago by
1961012
• 0
0
votes
0
replies
33
views
OMA output document error
OMA
output
document
error
1 day ago by
Yong
• 0
90,513 results • Page
1 of 1811
Recent Votes
A: How to add DS genotype in vcf file.
Answer: HaplotypeCaller VCF depth is greater than the number of reads in bam
Answer: CNVkit detected CNV number
A: CNVkit : small CNV calling
A: CNVkit : small CNV calling
How to design WGCNA: one analysis over all sample or seperate analysis (using consensus module analysis)?
Comment: Redundancy reduction of de novo transcriptome assemblies with Compacta?
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Recent Replies
Comment: Question about methods monitoring the change from dsDNA/RNA to ssRNA/DNA
by
Sophie
• 0
Ok thank you
Answer: Understanding the ColData Matrix
by
jared.andrews07
9.3k
Row names of the `colData` should match the column names of the `counts` matrix, each respective row or column representing a sample. `colD…
Comment: How to plot a image like this.
by
lincaijin1994
• 0
Thank you! But it seems that GenVisR doesn't include the function to repeat such a plot after reading its user guides. I wonder if you can …
Answer: format conversion using OpenBabel
by
Mensur Dlakic
★ 10k
It says clearly on their [**web page**][1] that `sdf` and `pdbqt` are among supported formats. If you can't do it directly, try converting …
Answer: Program for predicting RNA sequences that may bind to a protein Domain
by
Mensur Dlakic
★ 10k
I don't think you will be able to find such a tool. To answer your question more broadly, we do not have the ability to predict target sequ…
Comment: HaplotypeCaller VCF depth is greater than the number of reads in bam
by
wang.yiguan
• 0
Thanks, `--dont-use-soft-clipped-bases` solved the problem. It seems `samtools view/tview` doesn't show the soft clip base. If I don't u…
Answer: Understanding TCGA's ASCAT copy number data
by
Zhenyu Zhang
▴ 270
TCGA SNP6 ASCAT data shares the same format as WGS ASCAT data. If you search ASCAT in GDC documentation, you will find this page with det…
Answer: GDC Data Query
by
Zhenyu Zhang
▴ 270
are you complaining about getting full matrix data instead of truncated data? btw, for TCGA data in GDC, better to specify if it's legacy …
Comment: Meaning letters in TCGA sample barcode field
by
Zhenyu Zhang
▴ 270
I am pretty sure CPT is from CPTAC, and HCM is from HCMI. Neither are TCGA projects. Btw, using barcode is not a good habit in general. I …
Comment: Identification of the sequence insertion site in the genome
by
LacquerHed
• 0
If the BAM file represents a pretty small insertion, how can it be found once opened in IGV? Thanks.
Comment: Redundancy reduction of de novo transcriptome assemblies with Compacta?
by
GenoMax
99k
You can try it out and let us know :-) Good to know about it though. Thanks for posting the link.
Comment: Redundancy reduction of de novo transcriptome assemblies with Compacta?
by
Dunois
▴ 620
Hi @genomax , how are you? I'm looking at `Compacta` because I'd rather not use `CD-HIT` or `MMseqs2` if I can.
Comment: Redundancy reduction of de novo transcriptome assemblies with Compacta?
by
GenoMax
99k
Have you tried `CD-HIT` ([**LINK**][1]) for this application? [1]: http://weizhongli-lab.org/cd-hit/
Comment: Cellranger count.srun issues
by
GenoMax
99k
That does not make logical sense based on error which said command not found. If a prior script worked with same `PATH` but if this is gene…
Comment: Cellranger count.srun issues
by
gonzalezb549
• 0
cellranger is for sure installed. A sample script using the same commands just different fastq paths worked fine but for some reason this s…
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