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Limit : this week
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237 results • Page
1 of 5
Sort: Votes
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Votes
Replies
362
votes
82
replies
143k
views
35 follow
Tool:
Gnu Parallel - Parallelize Serial Command Line Programs Without Changing Them
parallel
next-gen
ngs
updated 2 days ago by
jena
▴ 290 • written 11.1 years ago by
ole.tange
★ 4.4k
164
votes
70
replies
60k
views
34 follow
How To Efficiently Parse A Huge Fastq File?
fastq
next-gen-sequencing
updated 2 hours ago by
Ram
43k • written 12.7 years ago by
Panos
★ 1.8k
49
votes
30
replies
11k
views
13 follow
Tutorial:
How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
documentation
meta
how-to
updated 6 hours ago by
Istvan Albert
100k • written 8.1 years ago by
Ram
43k
31
votes
14
replies
12k
views
11 follow
Finding Rrna Genes In Metagenomic Data
rna
rRNA
metagenomics
updated 2 days ago by
Ram
43k • written 13.5 years ago by
toshnam
▴ 650
21
votes
6
replies
16k
views
survfit(Surv()) P-value interpretation for 3 survival curves?
survfit
Surv
survival curves
R
updated 4 days ago by
marshelma
• 0 • written 4.5 years ago by
JJDollar
▴ 130
16
votes
7
replies
12k
views
8 follow
MAF vs VAF
sequencing
updated 3 days ago by
Ömer An
▴ 260 • written 6.0 years ago by
lauren.wahyudi
▴ 50
15
votes
10
replies
7.5k
views
6 follow
Intersect multiple BED files
bed
intersect
updated 1 day ago by
Alex Reynolds
35k • written 8.2 years ago by
int11ap1
▴ 470
12
votes
7
replies
6.7k
views
Forum:
Differences between SMART-seq2, SMART-seq3, and 10x
cell
smartseq
UMIs
single
10x
updated 3 days ago by
dsull
★ 5.7k • written 2.6 years ago by
hamarillo
▴ 70
12
votes
14
replies
2.4k
views
8 follow
Forum:
Recovering bam files after unknown deletion in the storage
photorec
bam
sequencing
written 4.8 years ago by
Gabriel Wajnberg
▴ 70
11
votes
7
replies
894
views
Shrink logFC values after edgeR
logFC
edgeR
updated 4 days ago by
Gordon Smyth
★ 6.9k • written 8 weeks ago by
arvind.1
▴ 10
10
votes
6
replies
4.0k
views
Tutorial:
CorLevelPlot - Visualise correlation results, e.g., clinical parameter correlations
correlation
corlevelplot
updated 1 day ago by
Ram
43k • written 6.1 years ago by
Kevin Blighe
87k
9
votes
8
replies
5.6k
views
7 follow
CONTRA for CNV detection. troubleshooting
genome
next-gen-sequencing
cnv
software-error
updated 2 hours ago by
Ram
43k • written 9.8 years ago by
Kizuna
▴ 870
9
votes
6
replies
323
views
Forum:
F*up Night style events for Bioinformatics ? Comment if you're interested!
mistakes
updated 29 minutes ago by
Pierre Lindenbaum
160k • written 2 hours ago by
Ann
★ 2.4k
8
votes
6
replies
389
views
Pangenome of plant
pangenome
plant
updated 1 day ago by
talbots
• 0 • written 2 days ago by
analyst
▴ 10
7
votes
2
replies
199
views
Create a new reference genome with denovo assembly and standard reference with long read data?
PacBio
updated 2 days ago by
gconcepcion
▴ 410 • written 2 days ago by
eorr
▴ 30
7
votes
7
replies
3.3k
views
How to perform normalization when converting ATAC bam file to bigwig file using deeptools for IGV visualization
bamCoverage
deeptools
bigwig
IGV
ATAC
updated 6 days ago by
sgv
• 0 • written 2.2 years ago by
sir.outman
▴ 40
6
votes
7
replies
622
views
cutadapt not trimming all adapters in PE Illumina sequencing
NGS
Illumina
cutadapt
5 days ago by
joe
▴ 470
6
votes
9
replies
1.7k
views
How to convert .wib files to .wig or .bed?
wib
BED
wig
bedtools
1 day ago by
Zeng Jingyu
▴ 60
6
votes
13
replies
475
views
Allocating right resources to HPC using LSF scheduler
BWA
GATK
hpc
lsf
bsub
2 days ago by
Maverick
▴ 10
6
votes
12
replies
5.5k
views
6 follow
Getting sample information from GEO
GEO
NCBI
updated 1 day ago by
Tania
• 0 • written 6.9 years ago by
Tom_L
▴ 350
5
votes
8
replies
2.2k
views
VariantCalling with single sanger read
snps
blast
indel
Variant-Calling
updated 2 days ago by
Ram
43k • written 7.6 years ago by
Amirosein
▴ 70
5
votes
2
replies
321
views
Forum:
Can questions and answers on biostars be asked only in English? Can't I use Russian for example?
language
updated 3 days ago by
Michael
54k • written 3 days ago by
avpuzanov
• 0
5
votes
15
replies
4.7k
views
6 follow
Why are there many reads with green color in IGV of RNA-seq data?
rna-seq
IGV
mapping
updated 6 days ago by
vague-barracuda-4686
• 0 • written 4.7 years ago by
Apprentice
▴ 160
5
votes
5
replies
5.4k
views
beagle 4 exception: Duplicate marker
vcf
IBD
plink
beagle
updated 2 days ago by
Ram
43k • written 9.3 years ago by
galbarel
▴ 10
4
votes
2
replies
3.3k
views
Genome annotation: convert gtf to gff3 file
gff3
gtf
updated 3 days ago by
vague-barracuda-4686
• 0 • written 16 months ago by
shinyjj
▴ 50
4
votes
11
replies
1.2k
views
Paired layout, but one fastq file
fastq
updated 16 hours ago by
GenoMax
140k • written 12 months ago by
Andy
▴ 120
4
votes
14
replies
4.5k
views
8 follow
Installation: Tax4Fun2 package are not found and github repository is not maintained anymore
Tax4Fun2
updated 1 day ago by
Ram
43k • written 21 months ago by
Elsa
▴ 20
4
votes
3
replies
1.2k
views
GATK best practices for Broad-produced NGS data
NGS
GATK4
BroadInstitute
Variant-Calling
updated 2 days ago by
Ram
43k • written 5.3 years ago by
Mehulsharma.253
▴ 30
4
votes
12
replies
3.4k
views
How to read VCF (v4.1) file? (student project) (samtools version 0.1.19)
variant-calling
samtools
VCF
BCF
updated 2 days ago by
Ram
43k • written 5.5 years ago by
c.clarido
▴ 110
4
votes
9
replies
667
views
Snakemake >= version 8 cluster configuration and SLURM job submission
parallelization
slurm
snakemake
cluster
updated 3 days ago by
Simon
▴ 10 • written 6 days ago by
Maxwell
▴ 20
3
votes
10
replies
654
views
Intersect gene IDs list and GFF3 to get the annotation.
annotation
GFF
5 days ago by
Lissa Cruz Saavedra
• 0
3
votes
5
replies
378
views
Losing my mind with a VCF problem
vcf
bcftools
updated 6 days ago by
Michael
54k • written 6 days ago by
a.beggs
▴ 30
3
votes
5
replies
586
views
somatic variant calling without matched normal in long-reads
variants
cancer
illumina
ONT
nanopore
2 days ago by
eesiribloom
▴ 50
3
votes
5
replies
588
views
How to filter Illumina Nirvana variant annotation?
nirvana
filtration
updated 4 days ago by
Pierre Lindenbaum
160k • written 4 days ago by
Kauno tvirtovės
• 0
3
votes
7
replies
523
views
Blast NCBI online using R
R
NCBI
BLAST
Rstudio
2 days ago by
Begonia_pavonina
▴ 140
3
votes
0
replies
124
views
Herald:
The Biostar Herald for Monday, March 25, 2024
herald
3 days ago by
Biostar
2.6k
3
votes
14
replies
406
views
Variant calling of GBS data
GBS
variants
BQSR
1 hour ago by
analyst
▴ 10
3
votes
5
replies
752
views
Error in openning FastQC
fastqc
igv
updated 1 day ago by
GenoMax
140k • written 7 months ago by
huynhthienphai
• 0
3
votes
12
replies
634
views
Facing problem with extracting phenotypic data from GEO
WGCNA
GEO
1 day ago by
bioinfo_enthusiast
• 0
3
votes
2
replies
275
views
FDR and Bonferroni
FDR
Bonferroni
updated 17 hours ago by
joe
▴ 470 • written 2 days ago by
song
• 0
2
votes
1
reply
301
views
GIS overlay for environmental samples from NCBI
NCBI
environmental
SRA
GIS
ArcPro
5 days ago by
joe
▴ 470
2
votes
7
replies
596
views
Selecting query format for repeated calls to NCBI's API
NCBI
esummary
elink
API
efetch
updated 2 days ago by
GenoMax
140k • written 5 weeks ago by
LauferVA
4.1k
2
votes
5
replies
451
views
Searching for gene in multiple genomes
gene
genome
alignment
sequence
updated 5 days ago by
BioinfGuru
★ 1.6k • written 6 days ago by
Miya
• 0
2
votes
4
replies
350
views
Visualizing human genomic loci
Genome
visualization
2 days ago by
James
▴ 10
2
votes
2
replies
257
views
Annotating indels and SNVs
annotation
indels
SNV
6 days ago by
am29
▴ 30
2
votes
3
replies
239
views
Extracting information from my VCF file
VCF
updated 2 days ago by
bioruffo
▴ 40 • written 2 days ago by
realtreeecat
• 0
2
votes
2
replies
4.3k
views
Variant calling for sanger reads
variant-calling
sanger
alignment
variants
updated 2 days ago by
Ram
43k • written 7.6 years ago by
Amirosein
▴ 70
2
votes
6
replies
3.3k
views
Base Quality of a reported variant in VCF
alignment
FASTQ
VCF
next-gen
Variant-Calling
updated 2 days ago by
Ram
43k • written 9.1 years ago by
VineethVenumadhavan
▴ 50
2
votes
2
replies
292
views
Seeking help with Tcga Target Gtex Expected Count Data
R
TCGA
gTEX
4 days ago by
bioinfo_enthusiast
• 0
2
votes
6
replies
452
views
Need help understanding core SNPs
SNPs
snippy
3 days ago by
ujichu
• 0
237 results • Page
1 of 5
Recent Votes
Answer: F*up Night style events for Bioinformatics ? Comment if you're interested!
Answer: F*up Night style events for Bioinformatics ? Comment if you're interested!
F*up Night style events for Bioinformatics ? Comment if you're interested!
Comment: F*up Night style events for Bioinformatics ? Comment if you're interested!
Answer: F*up Night style events for Bioinformatics ? Comment if you're interested!
Comment: F*up Night style events for Bioinformatics ? Comment if you're interested!
Answer: F*up Night style events for Bioinformatics ? Comment if you're interested!
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GenoMax
140k
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★ 2.4k
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104k
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Recent Replies
Comment: Low number of both surviving reads after trimming
by
GenoMax
140k
A significant fraction of your reads appear to have the nextera sequence, that combined to this directive `LEADING:20` (do you have a reaso…
Comment: Low number of both surviving reads after trimming
by
Jay
• 0
Here is my fastqc, especially adapter content graph, before trimming(R1 and R2): ![enter image description here][1] And this after trimm…
Comment: Low number of both surviving reads after trimming
by
Jay
• 0
Thanks, I modified.
Comment: F*up Night style events for Bioinformatics ? Comment if you're interested!
by
Pierre Lindenbaum
160k
11 years ago: https://www.biostars.org/p/7126/
Comment: F*up Night style events for Bioinformatics ? Comment if you're interested!
by
Dave Carlson
★ 1.7k
haha yes exactly! After the first or second ruined fasta, I started "catting" all fasta files and piping to other commands, just to reduce …
Comment: F*up Night style events for Bioinformatics ? Comment if you're interested!
by
Istvan Albert
100k
... ha, beat me to it, posted at the same time ... this error rules them all .. here is a cool trick on how to count fasta headers in file…
Answer: F*up Night style events for Bioinformatics ? Comment if you're interested!
by
Dave Carlson
★ 1.7k
I've definitely ruined some genome fasta files by running `grep ^> mygenome.fasta` instead of `grep "^>" mygenome.fasta`
Comment: Error in CIBERSORTx
by
o.nad
• 0
Hello. I faced the same problem but not able to resolve it. I don't have double quotation and no NA values and the dataset used is in the f…
Answer: Annotation of Complex genomes using NCBI Genome Workbench
by
Lissa Cruz Saavedra
• 0
Hi Recently, I used https://www.gensas.org/ to make the annotation. It was pretty practical and in my opinion easy. You just need to up…
Comment: Hybrid assembly Pacbio- Nanopore
by
Lissa Cruz Saavedra
• 0
Hi Thanks for your answer. I think I have very good coverage. My genome size is 48M. I also have data from poreC and illumina, the last on…
Comment: Variant calling of GBS data
by
analyst
▴ 10
Anyone please suggest which variant caller can be the best choice for variant calling of GBS data for polyploid plant.
Comment: Variant calling of GBS data
by
analyst
▴ 10
Does GATK Haplotypecaller take care of ploidy because few plants are polyploid?
Comment: Looking for RPIP Illumina kit probe sequences
by
GenoMax
140k
More than likely they will only be available in the accompanying analysis app (Explify RPIP) in BaseSpace. Check with Illumina tech support…
Comment: F*up Night style events for Bioinformatics ? Comment if you're interested!
by
Mensur Dlakic
★ 26k
Pretty sure I have done it, but can't remember the details. You know that thing about blocking out traumatic events ...
Comment: Number of CPUs to use by DRAP for transcriptomic assmbly
by
GenoMax
140k
> I have just noticed in the documentation that there is no argument to specify the number of CPUs to use for calculations. If the program…
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