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824 results • Page
3 of 17
Sort: Rank
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Votes
Replies
0
votes
1
reply
347
views
FVA on Sybil
R
Sybil
metabolic
fba
fva
updated 4 days ago by
Thomas
• 0 • written 22 months ago by
isM15
• 0
0
votes
3
replies
273
views
Viral genes not showing up in combined mouse+virus alignment
RNAseq
3 days ago by
cook.675
▴ 210
0
votes
1
reply
166
views
How to create a mutation frequency comparison plot?
R
data-visualization
plot
updated 4 days ago by
rpolicastro
12k • written 4 days ago by
saipra003
▴ 10
0
votes
4
replies
316
views
CHIPSEQ : Cut AND Run , DiffBind Parameters
Cut-Run
DiffBind
ChIP-seq
3 days ago by
DINESHR
• 0
0
votes
0
replies
110
views
MUSCLE Protein Alignment of Distantly Related Proteins
muscle
protein
alignment
4 days ago by
Richard Fontaine
• 0
4
votes
6
replies
394
views
bwa mem hangs after a few thousand reads
bwa-mem
alignment
bwa
calling
variant
4 days ago by
cee28
▴ 30
2
votes
1
reply
191
views
How to get unaligned reads and aligned reads into separate files from SAM/BAM?
bam
sam
reads
fastq
updated 4 days ago by
rpolicastro
12k • written 4 days ago by
O.rka
▴ 710
2
votes
2
replies
811
views
Using ggplot2 to make barplots of RNASeq data - maintaining sample metadata when pivoting from wide to long format
rnaseq
pivot_longer
ggplot2
updated 4 days ago by
cmdcolin
★ 3.4k • written 4 days ago by
Dylan C-C
• 0
3
votes
4
replies
317
views
Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not present in R
FDR
volcano
plotting
R
plot
updated 4 days ago by
Nitin Narwade
★ 1.5k • written 4 days ago by
RNAseqer
▴ 250
0
votes
1
reply
170
views
bam or VCF files from GSE75010
bam
file
or
VCF
updated 5 days ago by
ATpoint
78k • written 5 days ago by
ahonya
• 0
0
votes
0
replies
154
views
Bcftools consensus when reference is a deletion
consensus
vcf
5 days ago by
selplat21
▴ 20
1
vote
1
reply
210
views
How should I run ssgsea analysis ?
functional
TPM
enrichment
gsea
ssgsea
updated 5 days ago by
singh.vijender
▴ 110 • written 5 days ago by
DareDevil
★ 3.3k
0
votes
5
replies
358
views
How to deeply sequence long inserts
NGS
phage
read
display
Long
updated 4 days ago by
GenoMax
136k • written 5 days ago by
Ryan
• 0
0
votes
1
reply
154
views
VCF conservation into Treemix
Treemix
Plink
VCF
updated 5 days ago by
singh.vijender
▴ 110 • written 5 days ago by
reza
▴ 300
1
vote
2
replies
235
views
Comparing 3 Data Sets using DeSeq and Heatmaps
DeSeq
Normalization
5 days ago by
harter-ainsworth.izaak
• 0
0
votes
0
replies
115
views
scVelo cell transitions from marker gene expressing cells
velocity
scvelo
RNA
5 days ago by
rbronste
▴ 420
3
votes
2
replies
205
views
Moving AF tag to new column in a VCF file
mutect2
vcf
5 days ago by
Christian
▴ 30
1
vote
5
replies
348
views
How can I map coordinates between two strains of yeast?
coordinates
yeast
genome
mapping
fasta
2 days ago by
Jimmy
▴ 10
0
votes
1
reply
170
views
The difference blastn output when using subject and db options
genome
blastn
mite
annotation
tracker
updated 5 days ago by
GenoMax
136k • written 5 days ago by
praasu
▴ 40
1
vote
3
replies
275
views
Identify clusters of populations based on gene expression
Seq
Single
cell
RNA
updated 5 days ago by
Nitin Narwade
★ 1.5k • written 5 days ago by
Bine
▴ 50
1
vote
7
replies
384
views
featureCounts results: low rate of 'Successfully assigned alignments'
FeatureCounts
HISAT2
RNA-seq
4 days ago by
Hamtaro
▴ 10
0
votes
1
reply
166
views
Python function to export the annotated records to genbank file using python and biopython
biopython
python
bioinformatic
programming
updated 5 days ago by
barslmn
★ 2.0k • written 5 days ago by
Saurabh
• 0
1
vote
6
replies
361
views
Discrepancy in total number of bases in trimmed read1 and read2 files after BBDuk
bbduk
4 days ago by
CTLong
▴ 20
2
votes
1
reply
164
views
unicycler error : [Errno 13] Permission denied:
unicycler
updated 5 days ago by
barslmn
★ 2.0k • written 5 days ago by
jiyoung
▴ 20
2
votes
4
replies
449
views
Protein Database
protein
course
database
updated 5 days ago by
Elisabeth Gasteiger
★ 2.3k • written 9 days ago by
Mery
• 0
0
votes
0
replies
102
views
Does breadth of coverage signify expression?
Coverage
breadth
Bedtools
Expression
count
5 days ago by
Smriti
▴ 10
0
votes
6
replies
303
views
I made an error when using metawrap to binning
metagenome
binning
metawrap
5 days ago by
alice005201314
• 0
1
vote
4
replies
279
views
Bowtie mapping for single_end read
bowtie
5 days ago by
Rita
• 0
0
votes
4
replies
187
views
MRI VBM issue
MRI
VBM
ROI
Rhesus
5 days ago by
Ethan Lee
• 0
5
votes
3
replies
286
views
SPAdes error: finished abnormally, OS return value: 21
SPAdes
updated 5 days ago by
Brian Bushnell
19k • written 5 days ago by
jiyoung
▴ 20
0
votes
5
replies
546
views
Lack of correspondance of GFA node IDs to giraffe/call node IDs
giraffe
pggb
vg
updated 5 days ago by
Wenhai
• 0 • written 6 weeks ago by
javierbelmor
• 0
0
votes
0
replies
109
views
missing region in the process of annotation
annotatr
minfi
5 days ago by
Aki
▴ 10
0
votes
3
replies
4.0k
views
pheatmap lengends are being cutoff
pheatmap
legends
rstudio
heatmaps
updated 5 days ago by
Chris S.
▴ 320 • written 2.7 years ago by
enh
• 0
0
votes
0
replies
340
views
Job:
Postdoctoral Researcher in Alzheimer's disease Genetics, Multi-Omics, and Imaging Biomarkers, St Louis, MO, USA
Multi-Omics
Imaging
Alzheimer
Genetics
5 days ago by
belloy
• 0
0
votes
2
replies
226
views
using RSEM with non Trinity assembly
SPAdes
Trinity
RSEM
5 days ago by
jen
• 0
0
votes
2
replies
320
views
Help doing differential expression analysis -experimental design and gProfiler TF interpretation-
gProfiler
mRNA
Differential-expression
TCGA
updated 4 days ago by
rajabolacuan
• 0 • written 12 days ago by
Camilo Andres
▴ 40
0
votes
1
reply
255
views
Diferences between TCGAbiolinks and cBioportal
R
TCGAbiolinks
cBioportal
updated 5 days ago by
Zhenyu Zhang
★ 1.1k • written 10 days ago by
jomagrax
▴ 40
1
vote
0
replies
101
views
Visualize and explore eventalign data against reference
igv
minimap
nanopolish
nanopore
ngs
5 days ago by
joe
▴ 420
0
votes
6
replies
382
views
Best practices for differential expression analysis with low-yield Nanopore/ONT direct cDNA data?
RNA-Seq
Nanopore
ONT
differential
expression
4 days ago by
tw_140
• 0
3
votes
2
replies
200
views
Running STAR on fastq file generated from a RNA-seq experiment
STAR
RNAseq
fastq
files
updated 6 days ago by
Darked89
4.5k • written 6 days ago by
achanda
• 0
2
votes
3
replies
306
views
DEseq2 input
DEseq2
updated 6 days ago by
ATpoint
78k • written 6 days ago by
r.shiasi3897
▴ 10
0
votes
1
reply
168
views
Combine Geoids
Geoids
NCBI
updated 6 days ago by
ATpoint
78k • written 6 days ago by
anasjamshed
▴ 120
1
vote
2
replies
246
views
Best practices for unstranded sequences in featureCounts
featurecounts
overlapping
unstranded
5 days ago by
Enrique
• 0
1
vote
1
reply
193
views
Choose between pvalue & pvalue.adj
volcanoplot
updated 6 days ago by
Istvan Albert
99k • written 6 days ago by
Guitout
• 0
0
votes
5
replies
319
views
HTseq reports missing attribute name
htseq
updated 3 days ago by
Istvan Albert
99k • written 6 days ago by
Bjorn
• 0
3
votes
0
replies
164
views
Herald:
The Biostar Herald for Monday, November 27, 2023
herald
6 days ago by
Biostar
2.3k
9
votes
15
replies
798
views
Construction of single sequence assembly out of contigs
Contigs
Bacteria
Genome
WGS
4 days ago by
analyst
▴ 10
4
votes
2
replies
1.9k
views
Masurca. Failed to pre-correct Nanopore data, please check your data!
Nanopore
Masurca
updated 6 days ago by
colindaven
5.7k • written 2.4 years ago by
kamanovae
▴ 100
0
votes
0
replies
102
views
Differentiate sequenced and imputed variants in BGEN files
imputation
bgen
ukb
6 days ago by
user230613
▴ 350
0
votes
4
replies
273
views
Species coverage in the NCBI protein NR database ?
NR
updated 6 days ago by
Istvan Albert
99k • written 6 days ago by
HERMAN
▴ 10
824 results • Page
3 of 17
Recent Votes
Comment: Bioinformatics: what do you think of it in the next 20 years?
Comment: KEGG DATABASE
Answer: From TPM to raw counts
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Answer: From TPM to raw counts
Comment: From TPM to raw counts
NOEL: An extremely fast Non-Overlapping Exon Length calculator written in Rust
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Recent Replies
Answer: Error in blast+
by
Mensur Dlakic
★ 25k
Joys of doing Bioinformatics on Windows, and consequently dealing with spaces in file and directory names. I suggest you move your datab…
Comment: Which language use as a beginner in Bioinformatics and Computational genomics
by
Mensur Dlakic
★ 25k
I assume here you mean the usefulness for common tasks such as file manipulation and pipeline creations. How would one do sequence assembly…
Answer: Which language use as a beginner in Bioinformatics and Computational genomics
by
Mensur Dlakic
★ 25k
There is no single language that is best suited for all areas of Bioinformatics. If one's main interest is RNA-seq, R will probably be more…
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Brian Bushnell
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It depends on specifically what you will be doing. But IMO the order of importance is Bash > Python > R.
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bkffadia
• 0
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99k
there is no need to "average" anything, the point of replicates and RNA-Seq in general, is to measure the same thing several times and use …
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I would say every scientist needs to know R - so if you don't know R it would serve you well to learn it. In my opinion Python is not we…
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Arrays do not have counts. RMA-proceased data are fine. See limma user guide.
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What is the question? I assume you googled 'differential RNA-seq' and tried the obvious tools such as DESeq2 and limma?
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After reads are mapped to the genome, there are algorithms that quantify the number of mapped reads onto a genomic locus. Some of these alg…
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thanks for making these great tools
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