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59 results • Page
1 of 2
Sort: Votes
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Votes
Replies
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
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
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
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
3
votes
14
replies
406
views
Variant calling of GBS data
GBS
variants
BQSR
1 hour ago by
analyst
▴ 10
2
votes
2
replies
114
views
Interproscan taking so much time
slurm
interproscan
transcriptomics
updated 8 hours ago by
dthorbur
★ 1.7k • written 9 hours ago by
Mohamed Abderrahmane
▴ 10
2
votes
8
replies
250
views
Piping samtools to R
R
NGS
bash
samtools
23 hours ago by
joe
▴ 470
2
votes
4
replies
284
views
Hybrid assembly Pacbio- Nanopore
long-reads
hybric
assembly
genome
short-reads
1 hour ago by
Lissa Cruz Saavedra
• 0
2
votes
3
replies
2.1k
views
Platanus-allee phasing fail: Error(13): Error, SolveDBG exception!!
genome
next-gen
software-error
Assembly
updated 2 hours ago by
Ram
43k • written 4.0 years ago by
memy
▴ 20
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
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
2
votes
2
replies
62
views
Gene reads all zero for each sample
R
salmon
DE
DESeq2
3 hours ago by
DYLAN NICO
• 0
2
votes
10
replies
704
views
Only one read per run - Trying to use CellRangerv7
Fastq
CellRanger
updated 4 hours ago by
Ram
43k • written 5 weeks ago by
Sky
▴ 10
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
12
replies
521
views
Nanopore data filtering using fastp
fastp
nanopore
3 hours ago by
emilydolivo97
• 0
1
vote
8
replies
3.2k
views
cutadapt error problem
next-gen
cutadapt
updated 2 hours ago by
Ram
43k • written 5.5 years ago by
amitpande74
▴ 20
1
vote
2
replies
90
views
Flow Cytometry Data Analysis by Seurat
Seurat
updated 2 hours ago by
Ram
43k • written 7 hours ago by
gdfsnkfns
• 0
1
vote
11
replies
250
views
struggle to get fasta files from ucsc goldenPath
ucsc
getfasta
fasta
updated 1 hour ago by
GenoMax
140k • written 7 hours ago by
Lila M
★ 1.2k
1
vote
9
replies
3.4k
views
Error in CIBERSORTx
RNA-seq
CIBERSORT
LM22
updated 45 minutes ago by
Ram
43k • written 17 months ago by
Manav
• 0
1
vote
2
replies
105
views
Issue with making local BLAST database
R
mitochodrial
diatoms
blast
ncbi
updated 30 minutes ago by
Ram
43k • written 6 hours ago by
Begonia_pavonina
▴ 140
0
votes
0
replies
58
views
meta-analysis on RNA seq AND microarray results
microarray
RNA
10 hours ago by
liuyibin2005
• 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
0
replies
69
views
Training
chip-seq
ScATAC-seq
6 hours ago by
Manhezz
• 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
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 4 hours ago by
Ram
43k • written 16 hours ago by
Dora
▴ 10
0
votes
1
reply
66
views
(sc)RNA-seq dataset for these cell lines: HEK293, HeLa, PC3 and U2OS
scRNA-seq
updated 4 hours ago by
Ram
43k • written 4 hours ago by
chiditatawmbi
• 0
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
0
replies
38
views
Contradictions in GSEA results
GSEA
Enrichment-analysis
PEA
updated 3 hours ago by
Ram
43k • written 3 hours ago by
Tolga
▴ 20
0
votes
1
reply
88
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
3
replies
235
views
FindAllMarkers not working (Error (data layers are not joined. Please run JoinLayersWarning: When testing 1 versus all)
FindAllMarkers
seurat
re-clustering
3 hours ago by
Nitin
• 0
0
votes
2
replies
157
views
Can I have multiple active GDC download tokens?
TCGA
updated 3 hours ago by
Zhenyu Zhang
★ 1.1k • written 3 days ago by
mrk
• 0
0
votes
0
replies
52
views
How to change alternate conformation occupancy ?
Bio.PDB.Atom
Bio.PDB
biopython
updated 3 hours ago by
Ram
43k • written 6 hours ago by
udakshi
• 0
0
votes
2
replies
92
views
ONT direct RNA sequencing
DRS
ONT
updated 40 minutes ago by
Ram
43k • written 7 hours ago by
Karina
• 0
0
votes
0
replies
67
views
How to check if a few pathways have relationship?
MSigdb
REACTOME
KEGG
16 hours ago by
Chris
▴ 260
0
votes
2
replies
154
views
novel and know mir156 and mir172
a
updated 18 hours ago by
gayachit
▴ 200 • written 22 hours ago by
Fadmo
• 0
0
votes
1
reply
477
views
Which fasta files are assembled transcripts IDBA_tran assembler ?
RNA-Seq
Assembly
updated 19 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
19 hours ago by
aleksk779
• 0
0
votes
3
replies
3.0k
views
Is there any method for using WES data from Illumina Hiseq into ABSOLUTE?
R
next-gen-sequencing
absolute
updated 2 hours ago by
Ram
43k • written 6.7 years ago by
namhaesly
• 0
0
votes
7
replies
314
views
Salmon Quantification in Alignment based-mode
Salmon
RNA-seq
TPM
updated 19 hours ago by
GenoMax
140k • written 1 day ago by
Patadu94
• 0
0
votes
1
reply
99
views
Update R in Posit Workbench
R
Posit
updated 23 hours ago by
Ram
43k • written 23 hours ago by
Nitin
• 0
0
votes
5
replies
61
views
Low number of both surviving reads after trimming
trimmomatic
trimming
updated 5 minutes ago by
GenoMax
140k • written 2 hours ago by
Jay
• 0
0
votes
5
replies
303
views
Parsing fasta file by coordinates
linux
fasta
updated 2 hours ago by
GenoMax
140k • written 2 days ago by
sorrymouse
▴ 120
0
votes
0
replies
10
views
News:
Online course: Analysis of Prokaryotic Pangenomes (Last call)
Prokaryotic
Pangenomics
BacterialGenomics
22 minutes ago by
carlopecoraro2
★ 2.4k
0
votes
1
reply
47
views
Number of CPUs to use by DRAP for transcriptomic assmbly
DRAP
CPU
transcriptomics
updated 1 hour ago by
GenoMax
140k • written 3 hours ago by
Mohamed Abderrahmane
▴ 10
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
2
replies
162
views
Why counting by diffbind and featurecounts differ?
featurecounts
diffbind
21 hours ago by
Ankit
▴ 500
0
votes
0
replies
20
views
Is RNAseq data from a monoclonal cell line technically considered scRNAseq?
scRNA
RNAseq
1 hour ago by
sithlordashley
• 0
59 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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140k
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★ 2.4k
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104k
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160k
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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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