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112,662 results • Page
1 of 2254
Sort: Rank
Rank
Views
Votes
Replies
0
votes
2
replies
142
views
How to determine the total count for each gene in lymphotype B
scRNAseq
Seurat
21 minutes ago by
dalibenam64
• 0
0
votes
2
replies
24
views
Sequence quality drops in the 3' end of the left sequence in paired end. What could be the cause?
sequencing
20 minutes ago by
eggrandio
▴ 40
1
vote
2
replies
33
views
ncbi error report log for validate fastq issue
sra-tools
1 hour ago by
1769mkc
★ 1.1k
1
vote
4
replies
156
views
Running Rockhopper from a command-line
rockhopper
java
2 hours ago by
langziv
▴ 50
1
vote
1
reply
62
views
Fetch Fastq files directly for SRA data
NCBI
FASTQ
SRA
updated 4 hours ago by
Rob
6.2k • written 5 hours ago by
Chintan
• 0
762
votes
162
replies
123k
views
105 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 6 weeks ago by
Biostar
2.0k • written 6.8 years ago by
Istvan Albert
98k
2
votes
3
replies
140
views
Which function is best for pathway analysis?
pathway
updated 3 hours ago by
luffy
▴ 50 • written 17 hours ago by
Chris
▴ 180
0
votes
2
replies
96
views
identify DEGs across all conditions and per specific conditions
R
bulk
DEseq2
updated 2 hours ago by
luffy
▴ 50 • written 11 hours ago by
camillab.
▴ 130
0
votes
3
replies
107
views
Bug of vg surject
vg
updated 5 hours ago by
Jordan M Eizenga
▴ 360 • written 6 hours ago by
Qi
• 0
0
votes
1
reply
72
views
GO ENRICHMENT ANALYSIS- DESEQ
GO
updated 2 hours ago by
Basti
★ 1.7k • written 11 hours ago by
oduduabasi.isaiah
• 0
7
votes
6
replies
362
views
Low Alignment rate
alignment
low_alignment_rate
Bowtie2
updated 7 hours ago by
dsull
★ 4.7k • written 2 days ago by
Mehwish
• 0
0
votes
2
replies
147
views
Bacterial Pangenome Analysis
Prokka
Pangenome
bacteria
Roary
3 hours ago by
kirankumareripogu
▴ 10
0
votes
8
replies
354
views
Violin plot (Monocle 3) - Troubleshooting
Monocle3
updated 11 hours ago by
Ram
40k • written 1 day ago by
seattlescientist_01
• 0
1
vote
8
replies
253
views
How to plot proportion of cells in each cluster with scanpy?
scRNA-seq
scanpy
single-cell
13 hours ago by
bioinfo
▴ 110
0
votes
1
reply
94
views
Troubles launch IGV on Linux(Debian)
IGV
updated 10 hours ago by
morovatunc
▴ 550 • written 14 hours ago by
PoscaXVIII
• 0
0
votes
4
replies
175
views
Comparing multiple columns from two files using AWK
awk
updated 14 hours ago by
Ram
40k • written 15 hours ago by
emiliomastriani
▴ 30
0
votes
1
reply
95
views
DESeq2 error - converting result object into dataframe
R
DESeq2
Shiny
updated 15 hours ago by
Ram
40k • written 16 hours ago by
shasabhi1
• 0
0
votes
1
reply
91
views
Calculating haplotype and nucleotide diversity with deep amplicon sequencing data
haplotype
diversity
Pegas
Arlequin
HTS_data
just now by
deorugz
• 0
3
votes
3
replies
2.2k
views
WGCNA Labeled Heatmap
heatmap
wgcna
updated 16 hours ago by
Ram
40k • written 2.0 years ago by
Anand
▴ 40
0
votes
0
replies
63
views
How to remove chimera from 16S Sanger contigs
sanger-sequencing
chimera
uchime
updated 17 hours ago by
Ram
40k • written 19 hours ago by
eimanpharmacist
▴ 20
2
votes
0
replies
86
views
Herald:
The Biostar Herald for Tuesday, September 26, 2023
herald
19 hours ago by
Biostar
2.0k
0
votes
0
replies
74
views
ptt and rnt files that were created from assembly rather than a genome
rockhopper
genbank
updated 17 hours ago by
Ram
40k • written 19 hours ago by
langziv
▴ 50
1
vote
5
replies
174
views
bcftools error merging two VCFs: REF prefixes differ
bcftools
VCF
11 hours ago by
Shane
• 0
0
votes
1
reply
253
views
Gene enrichment analysis of prokaryotes gene
prokaryotes
GO
enrichment
DEG
updated 22 hours ago by
dthorbur
▴ 550 • written 5 days ago by
Genta
• 0
0
votes
1
reply
110
views
GWAS phenotype
R
GWAS
phenotype
updated 23 hours ago by
dthorbur
▴ 550 • written 1 day ago by
sooni
▴ 10
0
votes
1
reply
250
views
RSEM not giving .genes.results and isoforms.results ; Plase check if you provide correct parameters/options for the pipeline!
genomics
transcriptome
rsem
ngs
updated 18 hours ago by
biofalconch
▴ 980 • written 1 day ago by
kat.bi
• 0
0
votes
2
replies
167
views
how to create a loop in R
R
offtopic
updated 17 hours ago by
Ram
40k • written 1 day ago by
mthm
▴ 50
0
votes
4
replies
165
views
BED files
BED
NGS
Chromosomes
updated 16 hours ago by
Ram
40k • written 1 day ago by
adarsh_pp
▴ 30
2
votes
6
replies
221
views
How the first sequencing template removed in pair end sequencing
NGS
RNA-seq
WGS
sequence
updated 2 hours ago by
rfran010
▴ 810 • written 1 day ago by
octpus616
▴ 90
0
votes
3
replies
191
views
Saving the output of LD pruning from SNPRelate package as a new GDS file
LD-pruning
SNPRelate
updated 16 hours ago by
James W. MacDonald
▴ 20 • written 1 day ago by
Patrick
• 0
0
votes
2
replies
459
views
Average Coverage after Assembly (Spades)
coverage
average
assembly
updated 1 day ago by
taniapsduarte
• 0 • written 13 months ago by
davidmaimoun
▴ 50
0
votes
5
replies
715
views
Can vg take MUMmer output as input?
vg
updated 17 hours ago by
Ram
40k • written 2.8 years ago by
ac2278
▴ 20
2
votes
5
replies
1.9k
views
6 follow
Samtools Failing to Install through Conda
samtools
conda
updated 17 hours ago by
Ram
40k • written 17 months ago by
jjp55
▴ 20
3
votes
10
replies
401
views
Should I Learn Docker to Run Command Line Bioinformatics Tool?
Docker
updated 13 hours ago by
ATpoint
77k • written 1 day ago by
arriyaz.nstu
▴ 30
0
votes
1
reply
139
views
GO analysis after DESeq2
GO
updated 1 day ago by
Ram
40k • written 1 day ago by
oduduabasi.isaiah
• 0
3
votes
2
replies
169
views
Program for Overlapping DMRs (Differentially Methylated Regions) Between Groups
methylation
DMR
updated 1 day ago by
Basti
★ 1.7k • written 1 day ago by
epianalysis
• 0
0
votes
0
replies
92
views
News:
New NCBI Datasets APIs to Replace Old Ones
NCBI
API
Datasets
1 day ago by
PeterC_NCBI
▴ 330
1
vote
3
replies
209
views
miRDeep2 - identifying miRNAs from deep sequencing data
microRNA
miRDeep2
updated 1 day ago by
Ram
40k • written 1 day ago by
Hasan
• 0
3
votes
4
replies
183
views
Unable to build applet in DNAnexus, .jar file not found
dnanexus
applet
updated 1 day ago by
LChart
3.4k • written 1 day ago by
_quantum_girl_
▴ 10
1
vote
4
replies
231
views
geom_signif() uses t-test to compare between more than 3 groups... Isn't this wrong?
ggplot2
ANOVA
t-test
23 hours ago by
RM123
▴ 10
0
votes
1
reply
129
views
Download an example of fully-imputed VCF files ?
VCF
impute
updated 1 day ago by
barslmn
★ 1.8k • written 1 day ago by
Ben
• 0
0
votes
1
reply
144
views
How to find the most representative protein data base ID for your protein?
modelling
protein
database
updated 1 day ago by
GenoMax
134k • written 1 day ago by
amy__
▴ 150
0
votes
2
replies
171
views
Visualize where kmers are on a reference genome
kmer
visualize
updated 1 day ago by
Alex Reynolds
35k • written 1 day ago by
Carrie
• 0
7
votes
7
replies
333
views
Filter human transcription factors
transcription-factor
RNA-seq
updated 18 hours ago by
jared.andrews07
★ 15k • written 1 day ago by
Chris
▴ 180
2
votes
5
replies
234
views
obtaining circular RNAs' sequences from circBase
circular-RNA
updated 23 hours ago by
Barry Digby
★ 1.2k • written 1 day ago by
aminijavad4
▴ 10
0
votes
0
replies
103
views
How to annotate BED for tissue expression?
BED
annotation
1 day ago by
Fabio_bie88
• 0
2
votes
0
replies
129
views
Job:
Human Genomics Team Leader
ebi
ensembl
embl
genomics
1 day ago by
Ben_Ensembl
★ 2.3k
0
votes
1
reply
1.7k
views
error when running local chlorop1.1
chlorop
updated 1 day ago by
Ram
40k • written 7.3 years ago by
gerrychang1985
▴ 40
3
votes
14
replies
1.9k
views
10 follow
Help writing code for a question on my homework
biopython
updated 10 minutes ago by
Joe
21k • written 2.4 years ago by
hannahcheyenna
• 0
1
vote
1
reply
225
views
bedGraph for Coverage of Insert from Paired-End Data?
genome
awk
coverage
bed
paired-end
updated 1 day ago by
shelkmike
▴ 980 • written 4 days ago by
vanbelj
▴ 40
112,662 results • Page
1 of 2254
Recent Votes
Comment: ncbi error report log for validate fastq issue
GEO data mining (IB) - Downloading Sequence Read Archive (SRA) raw data
Answer: Fetch Fastq files directly for SRA data
Answer: Running Rockhopper from a command-line
Comment: Hisat2 index and alignment question
Comment: How the first sequencing template removed in pair end sequencing
Comment: Which function is best for pathway analysis?
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Comment: Help writing code for a question on my homework
by
Joe
21k
This isn't really the right place for this question. Please ask this as a separate new question, but only if it is bioinformatics related.
Comment: How to determine the total count for each gene in lymphotype B
by
dalibenam64
• 0
thank you very much for your response I'm really grateful !! but I'm still confused because for example for patients I have 2 replicates…
Comment: Sequence quality drops in the 3' end of the left sequence in paired end. What co
by
eggrandio
▴ 40
But shouldn't quality drop at both 3'ends and not just on the left one?
Answer: Sequence quality drops in the 3' end of the left sequence in paired end. What co
by
ATpoint
77k
That's normal and known: https://www.biostars.org/p/91624/
Comment: to annotate BEDPE files
by
Lhl
▴ 760
is this what you are looking for? https://github.com/imgag/ngs-bits/blob/master/doc/tools/BedpeGeneAnnotation.md
Comment: ncbi error report log for validate fastq issue
by
1769mkc
★ 1.1k
" you're forced to use it" this is sort of since I have use docker image and then pass the GSM id as list of input first to check if the th…
Comment: ncbi error report log for validate fastq issue
by
ATpoint
77k
I don't think this log is helpful. Can't you just get fastq download links via sra-explorer.info or the tool mentioned by @rob in his answe…
Comment: GO ENRICHMENT ANALYSIS- DESEQ
by
Basti
★ 1.7k
You need to show an example of your list
Comment: How the first sequencing template removed in pair end sequencing
by
rfran010
▴ 810
Great! It looks like USER enzyme is used to cleave before the first read sequencing and formamidopyrimidine DNA N-glycosylase is used to cl…
Comment: module and trait correlation for WGCNA
by
andres.firrincieli
3.4k
Hi, First of all, you should never use DEGs for WGCNA. See @kevinblighe answer: [link][1]. > However, when it comes to module-trait analy…
Comment: identify DEGs across all conditions and per specific conditions
by
luffy
▴ 50
@camillab, Please look into Kevin Blighe's response in this [post][1] hope that helps. [1]: https://www.biostars.org/p/357464/
Answer: Running Rockhopper from a command-line
by
langziv
▴ 50
I managed to resolve the issue by passing absolute paths instead of relative ones.
Comment: Which function is best for pathway analysis?
by
luffy
▴ 50
@chris Please look into @Hamid Ghaedi's well documented [post][1] on ORA and GSEA, Or [this][2] documentation. Hope this helps. [1]: ht…
Comment: Bacterial Pangenome Analysis
by
kirankumareripogu
▴ 10
Hi @liorglic, Thank you for your prompt response. I totally agree with you that different blastp cuttoffs provide different results and…
Answer: Fetch Fastq files directly for SRA data
by
Rob
6.2k
What is the accession for the project? Many — though not all — of the projects present in the NCBI SRA are also hosted in the European Nuc…
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