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116,022 results • Page
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News:
Online course: Reproducibility in Bioinformatics
Singularity
Docker
VersionControlTools
Containers
7 minutes ago by
carlopecoraro2
★ 2.4k
0
votes
0
replies
11
views
News:
Online course: Analysis of Prokaryotic Pangenomes (Last call)
Prokaryotic
Pangenomics
BacterialGenomics
52 minutes ago by
carlopecoraro2
★ 2.4k
11
votes
6
replies
348
views
Forum:
F*up Night style events for Bioinformatics ? Comment if you're interested!
mistakes
updated 1 hour ago by
Pierre Lindenbaum
160k • written 3 hours ago by
Ann
★ 2.4k
1
vote
9
replies
3.4k
views
Error in CIBERSORTx
RNA-seq
CIBERSORT
LM22
updated 1 hour ago by
Ram
43k • written 17 months ago by
Manav
• 0
0
votes
1
reply
73
views
Annotation of Complex genomes using NCBI Genome Workbench
Genome-Workbench
MAKER
updated 1 hour ago by
Lissa Cruz Saavedra
• 0 • written 15 hours ago by
SAsciences
• 0
0
votes
0
replies
21
views
Is RNAseq data from a monoclonal cell line technically considered scRNAseq?
scRNA
RNAseq
1 hour ago by
sithlordashley
• 0
0
votes
1
reply
28
views
Looking for RPIP Illumina kit probe sequences
Sequences
Illumina
updated 1 hour ago by
GenoMax
140k • written 2 hours ago by
David Tachiquín
• 0
0
votes
6
replies
73
views
Low number of both surviving reads after trimming
trimmomatic
trimming
10 minutes ago by
Jay
• 0
793
votes
167
replies
139k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 9 weeks ago by
Biostar
2.6k • written 7.3 years ago by
Istvan Albert
100k
0
votes
2
replies
94
views
ONT direct RNA sequencing
DRS
ONT
updated 1 hour ago by
Ram
43k • written 7 hours ago by
Karina
• 0
0
votes
1
reply
48
views
Number of CPUs to use by DRAP for transcriptomic assmbly
DRAP
CPU
transcriptomics
updated 2 hours ago by
GenoMax
140k • written 3 hours ago by
Mohamed Abderrahmane
▴ 10
2
votes
2
replies
63
views
Gene reads all zero for each sample
R
salmon
DE
DESeq2
3 hours ago by
DYLAN NICO
• 0
0
votes
2
replies
157
views
Can I have multiple active GDC download tokens?
TCGA
updated 4 hours ago by
Zhenyu Zhang
★ 1.1k • written 3 days ago by
mrk
• 0
0
votes
0
replies
39
views
Contradictions in GSEA results
GSEA
Enrichment-analysis
PEA
updated 4 hours ago by
Ram
43k • written 4 hours ago by
Tolga
▴ 20
0
votes
0
replies
33
views
Illumina Dna Prep kit for sequencing phage linear genomes
tagmentation
transposons
phagetermini
sequencing
4 hours ago by
alenew.am
• 0
0
votes
3
replies
242
views
FindAllMarkers not working (Error (data layers are not joined. Please run JoinLayersWarning: When testing 1 versus all)
FindAllMarkers
seurat
re-clustering
4 hours ago by
Nitin
• 0
0
votes
1
reply
67
views
(sc)RNA-seq dataset for these cell lines: HEK293, HeLa, PC3 and U2OS
scRNA-seq
updated 4 hours ago by
Ram
43k • written 5 hours ago by
chiditatawmbi
• 0
0
votes
1
reply
90
views
Normalization strategies for comparing mapped reads across samples in RNA-seq
normalization
rnaseq
updated 4 hours ago by
Ram
43k • written 5 hours ago by
Picasa
▴ 640
0
votes
0
replies
53
views
How to change alternate conformation occupancy ?
Bio.PDB.Atom
Bio.PDB
biopython
updated 4 hours ago by
Ram
43k • written 6 hours ago by
udakshi
• 0
0
votes
0
replies
71
views
Training
chip-seq
ScATAC-seq
6 hours ago by
Manhezz
• 0
1
vote
2
replies
107
views
Issue with making local BLAST database
R
mitochodrial
diatoms
blast
ncbi
updated 52 minutes ago by
Ram
43k • written 7 hours ago by
Begonia_pavonina
▴ 140
1
vote
1
reply
267
views
diffbind : killed dba.count(DBsample, bParallel=FALSE)
diffbind
r
atacseq
7 hours ago by
Pierre Lindenbaum
160k
1
vote
2
replies
95
views
Flow Cytometry Data Analysis by Seurat
Seurat
updated 3 hours ago by
Ram
43k • written 7 hours ago by
gdfsnkfns
• 0
1
vote
11
replies
255
views
struggle to get fasta files from ucsc goldenPath
ucsc
getfasta
fasta
updated 2 hours ago by
GenoMax
140k • written 8 hours ago by
Lila M
★ 1.2k
2
votes
2
replies
90
views
Volcano Plot Output Inquiry: Graphs Facing Down
rstudio
volcano-plot
updated 3 hours ago by
dariober
14k • written 8 hours ago by
Pumla
• 0
0
votes
1
reply
74
views
Merging featureCounts output for different species
featureCounts
RNA-seq
updated 50 minutes ago by
Ram
43k • written 9 hours ago by
Christian
• 0
2
votes
2
replies
115
views
Interproscan taking so much time
slurm
interproscan
transcriptomics
updated 9 hours ago by
dthorbur
★ 1.7k • written 9 hours ago by
Mohamed Abderrahmane
▴ 10
0
votes
0
replies
53
views
Combine rename and rmdup in SeqKit to remove duplicate sequences and append N in header? Sort by occurence?
seqkit
fasta
9 hours ago by
Broccoli
• 0
0
votes
0
replies
51
views
Is there a good tool/reference for PBP and porin analysis
PBP
porin
9 hours ago by
blur
▴ 280
0
votes
0
replies
58
views
meta-analysis on RNA seq AND microarray results
microarray
RNA
10 hours ago by
liuyibin2005
• 0
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
0
votes
0
replies
48
views
SPOTlight deconvolution logFC, logFC cohen or mean.AUC
spatial-transcriptomics
SPOTlight
logFC
deconvolution
updated 4 hours ago by
Ram
43k • written 10 hours ago by
M'zelle
• 0
0
votes
5
replies
216
views
calculate mismatch rate from VCF file
mismatch-rate
VCF
updated 5 hours ago by
Ram
43k • written 16 hours ago by
Dora
▴ 10
2
votes
4
replies
285
views
Hybrid assembly Pacbio- Nanopore
long-reads
hybric
assembly
genome
short-reads
1 hour ago by
Lissa Cruz Saavedra
• 0
0
votes
0
replies
66
views
In scRNA, How should I set QC standards?
scRNA
QC
13 hours ago by
mnx0723
• 0
0
votes
2
replies
232
views
Error occurs when migrate-n software performs "make mpis"
migrate-n
15 hours ago by
lingxue
• 0
0
votes
0
replies
67
views
How to check if a few pathways have relationship?
MSigdb
REACTOME
KEGG
17 hours ago by
Chris
▴ 260
2
votes
10
replies
704
views
Only one read per run - Trying to use CellRangerv7
Fastq
CellRanger
updated 5 hours ago by
Ram
43k • written 5 weeks ago by
Sky
▴ 10
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
0
votes
1
reply
477
views
Which fasta files are assembled transcripts IDBA_tran assembler ?
RNA-Seq
Assembly
updated 20 hours ago by
weidonglu
• 0 • written 3.8 years ago by
sunnykevin97
▴ 980
0
votes
0
replies
81
views
doing some ontology enrichment analysis
GO
20 hours ago by
aleksk779
• 0
2
votes
1
reply
176
views
Choosing an FC Threshold
statistics
rna-seq
updated 19 hours ago by
Gordon Smyth
★ 6.9k • written 1 day ago by
Netanel
• 0
0
votes
1
reply
114
views
Converting AutoDock-Vina PDBQTs to PDB files
Docking
AutoDock
Vina
PDBQT
PDB
updated 22 hours ago by
Mensur Dlakic
★ 26k • written 1 day ago by
Ricard
• 0
0
votes
2
replies
154
views
novel and know mir156 and mir172
a
updated 19 hours ago by
gayachit
▴ 200 • written 23 hours ago by
Fadmo
• 0
0
votes
1
reply
99
views
Update R in Posit Workbench
R
Posit
updated 1 day ago by
Ram
43k • written 1 day ago by
Nitin
• 0
2
votes
8
replies
250
views
Piping samtools to R
R
NGS
bash
samtools
1 day ago by
joe
▴ 470
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
1
vote
2
replies
180
views
vg call is time consuming
vg
1 day ago by
Maxine
▴ 40
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
0
votes
8
replies
413
views
STAR aligner options
STAR
9 hours ago by
theophile
• 0
116,022 results • Page
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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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Ann
★ 2.4k
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Devon Ryan
104k
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160k
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Recent Replies
Comment: Low number of both surviving reads after trimming
by
Jay
• 0
Thank you for your response. There was no particular reason of `LEADING:20 and TRAILING:20`, but I used the same parameters as I had used …
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 ...
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