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116,024 results • Page
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Is it reasonable to discard reads that show variation of quality across its length?
Trimming
updated just now by
GenoMax
140k • written 8 minutes ago by
BRENO
• 0
0
votes
1
reply
24
views
Error running local blastn in R using system2
blastn
NCBI
R
updated 39 minutes ago by
GenoMax
140k • written 1 hour ago by
Harrison
• 0
14
votes
9
replies
406
views
Forum:
F*up Night style events for Bioinformatics ? Comment if you're interested!
mistakes
updated 26 minutes ago by
Dave Carlson
★ 1.7k • written 4 hours ago by
Ann
★ 2.4k
0
votes
0
replies
15
views
News:
Online course: Reproducibility in Bioinformatics
Singularity
Version-Control
Docker
Containers
updated 1 hour ago by
Ram
43k • written 1 hour ago by
carlopecoraro2
★ 2.4k
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
0
replies
15
views
News:
Online course: Analysis of Prokaryotic Pangenomes (Last call)
Prokaryotic
Bacterial-Genomics
Pangenomics
updated 1 hour ago by
Ram
43k • written 2 hours ago by
carlopecoraro2
★ 2.4k
1
vote
9
replies
3.4k
views
Error in CIBERSORTx
RNA-seq
CIBERSORT
LM22
updated 2 hours ago by
Ram
43k • written 17 months ago by
Manav
• 0
0
votes
1
reply
79
views
Annotation of Complex genomes using NCBI Genome Workbench
Genome-Workbench
MAKER
updated 2 hours ago by
Lissa Cruz Saavedra
• 0 • written 16 hours ago by
SAsciences
• 0
0
votes
0
replies
24
views
Is RNAseq data from a monoclonal cell line technically considered scRNAseq?
scRNA
RNAseq
3 hours ago by
sithlordashley
• 0
0
votes
1
reply
34
views
Looking for RPIP Illumina kit probe sequences
Sequences
Illumina
updated 3 hours ago by
GenoMax
140k • written 4 hours ago by
David Tachiquín
• 0
0
votes
8
replies
102
views
Low number of both surviving reads after trimming
trimmomatic
trimming
updated 40 minutes ago by
GenoMax
140k • written 4 hours ago by
Jay
• 0
0
votes
2
replies
101
views
ONT direct RNA sequencing
DRS
ONT
updated 2 hours ago by
Ram
43k • written 9 hours ago by
Karina
• 0
0
votes
1
reply
56
views
Number of CPUs to use by DRAP for transcriptomic assmbly
DRAP
CPU
transcriptomics
updated 3 hours ago by
GenoMax
140k • written 5 hours ago by
Mohamed Abderrahmane
▴ 10
2
votes
2
replies
69
views
Gene reads all zero for each sample
R
salmon
DE
DESeq2
4 hours ago by
DYLAN NICO
• 0
0
votes
2
replies
163
views
Can I have multiple active GDC download tokens?
TCGA
updated 5 hours ago by
Zhenyu Zhang
★ 1.1k • written 3 days ago by
mrk
• 0
0
votes
0
replies
42
views
Contradictions in GSEA results
GSEA
Enrichment-analysis
PEA
updated 5 hours ago by
Ram
43k • written 5 hours ago by
Tolga
▴ 20
0
votes
0
replies
37
views
Illumina Dna Prep kit for sequencing phage linear genomes
tagmentation
transposons
phagetermini
sequencing
5 hours ago by
alenew.am
• 0
0
votes
3
replies
256
views
FindAllMarkers not working (Error (data layers are not joined. Please run JoinLayersWarning: When testing 1 versus all)
FindAllMarkers
seurat
re-clustering
5 hours ago by
Nitin
• 0
0
votes
1
reply
72
views
(sc)RNA-seq dataset for these cell lines: HEK293, HeLa, PC3 and U2OS
scRNA-seq
updated 6 hours ago by
Ram
43k • written 6 hours ago by
chiditatawmbi
• 0
0
votes
1
reply
93
views
Normalization strategies for comparing mapped reads across samples in RNA-seq
normalization
rnaseq
updated 5 hours ago by
Ram
43k • written 7 hours ago by
Picasa
▴ 640
0
votes
0
replies
56
views
How to change alternate conformation occupancy ?
Bio.PDB.Atom
Bio.PDB
biopython
updated 5 hours ago by
Ram
43k • written 8 hours ago by
udakshi
• 0
0
votes
0
replies
73
views
Training
chip-seq
ScATAC-seq
8 hours ago by
Manhezz
• 0
1
vote
2
replies
114
views
Issue with making local BLAST database
R
mitochodrial
diatoms
blast
ncbi
updated 2 hours ago by
Ram
43k • written 8 hours ago by
Begonia_pavonina
▴ 140
1
vote
1
reply
269
views
diffbind : killed dba.count(DBsample, bParallel=FALSE)
diffbind
r
atacseq
9 hours ago by
Pierre Lindenbaum
160k
1
vote
2
replies
99
views
Flow Cytometry Data Analysis by Seurat
Seurat
updated 4 hours ago by
Ram
43k • written 9 hours ago by
gdfsnkfns
• 0
1
vote
11
replies
264
views
struggle to get fasta files from ucsc goldenPath
ucsc
getfasta
fasta
updated 3 hours ago by
GenoMax
140k • written 9 hours ago by
Lila M
★ 1.2k
2
votes
2
replies
94
views
Volcano Plot Output Inquiry: Graphs Facing Down
rstudio
volcano-plot
updated 4 hours ago by
dariober
14k • written 10 hours ago by
Pumla
• 0
0
votes
1
reply
76
views
Merging featureCounts output for different species
featureCounts
RNA-seq
updated 2 hours ago by
Ram
43k • written 10 hours ago by
Christian
• 0
2
votes
2
replies
116
views
Interproscan taking so much time
slurm
interproscan
transcriptomics
updated 10 hours ago by
dthorbur
★ 1.7k • written 10 hours ago by
Mohamed Abderrahmane
▴ 10
0
votes
0
replies
55
views
Combine rename and rmdup in SeqKit to remove duplicate sequences and append N in header? Sort by occurence?
seqkit
fasta
11 hours ago by
Broccoli
• 0
0
votes
0
replies
52
views
Is there a good tool/reference for PBP and porin analysis
PBP
porin
11 hours ago by
blur
▴ 280
0
votes
0
replies
61
views
meta-analysis on RNA seq AND microarray results
microarray
RNA
12 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 8 hours ago by
Istvan Albert
100k • written 8.1 years ago by
Ram
43k
0
votes
0
replies
50
views
SPOTlight deconvolution logFC, logFC cohen or mean.AUC
spatial-transcriptomics
SPOTlight
logFC
deconvolution
updated 6 hours ago by
Ram
43k • written 12 hours ago by
M'zelle
• 0
0
votes
5
replies
217
views
calculate mismatch rate from VCF file
mismatch-rate
VCF
updated 6 hours ago by
Ram
43k • written 18 hours ago by
Dora
▴ 10
2
votes
4
replies
290
views
Hybrid assembly Pacbio- Nanopore
long-reads
hybric
assembly
genome
short-reads
3 hours ago by
Lissa Cruz Saavedra
• 0
0
votes
0
replies
68
views
In scRNA, How should I set QC standards?
scRNA
QC
15 hours ago by
mnx0723
• 0
0
votes
2
replies
234
views
Error occurs when migrate-n software performs "make mpis"
migrate-n
17 hours ago by
lingxue
• 0
0
votes
0
replies
69
views
How to check if a few pathways have relationship?
MSigdb
REACTOME
KEGG
18 hours ago by
Chris
▴ 260
2
votes
10
replies
707
views
Only one read per run - Trying to use CellRangerv7
Fastq
CellRanger
updated 6 hours ago by
Ram
43k • written 5 weeks ago by
Sky
▴ 10
3
votes
2
replies
277
views
FDR and Bonferroni
FDR
Bonferroni
updated 18 hours ago by
joe
▴ 470 • written 2 days ago by
song
• 0
0
votes
1
reply
479
views
Which fasta files are assembled transcripts IDBA_tran assembler ?
RNA-Seq
Assembly
updated 21 hours ago by
weidonglu
• 0 • written 3.8 years ago by
sunnykevin97
▴ 980
0
votes
0
replies
83
views
doing some ontology enrichment analysis
GO
21 hours ago by
aleksk779
• 0
2
votes
1
reply
180
views
Choosing an FC Threshold
statistics
rna-seq
updated 21 hours ago by
Gordon Smyth
★ 6.9k • written 1 day ago by
Netanel
• 0
0
votes
1
reply
116
views
Converting AutoDock-Vina PDBQTs to PDB files
Docking
AutoDock
Vina
PDBQT
PDB
updated 1 day ago by
Mensur Dlakic
★ 26k • written 1 day ago by
Ricard
• 0
0
votes
2
replies
157
views
novel and know mir156 and mir172
a
updated 20 hours ago by
gayachit
▴ 200 • written 1 day ago by
Fadmo
• 0
0
votes
1
reply
101
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
252
views
Piping samtools to R
R
NGS
bash
samtools
1 day ago by
joe
▴ 470
8
votes
6
replies
391
views
Pangenome of plant
pangenome
plant
updated 1 day ago by
talbots
• 0 • written 2 days ago by
analyst
▴ 10
1
vote
2
replies
183
views
vg call is time consuming
vg
1 day ago by
Maxine
▴ 40
116,024 results • Page
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Answer: F*up Night style events for Bioinformatics ? Comment if you're interested!
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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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Comment: Error in openning FastQC
by
GenoMax
140k
What is `ctrl+c ctrl+v`? You may actually be killing the running fastqc process. If you run `fastqc` interactively (like what was shown ab…
Comment: F*up Night style events for Bioinformatics ? Comment if you're interested!
by
Dave Carlson
★ 1.7k
Ugh. I've definitely done this one before as well. And was none too happy about it.
Comment: Error in openning FastQC
by
friszd
• 0
fastqc -o output.html input.fastq ctrl+c ctrl+v
Comment: Error running local blastn in R using system2
by
GenoMax
140k
What do you see if you `cat nt_euk.nal`? Do the number of pieces mentioned in that file match with what you locally have?
Comment: Low number of both surviving reads after trimming
by
GenoMax
140k
It is your data and if you want to do that it is up to you. You may be throwing away essentially good data (you should remove the nextera s…
Comment: F*up Night style events for Bioinformatics ? Comment if you're interested!
by
Istvan Albert
100k
Some things never change ... the most common mistake is still the one on top there
Comment: Low number of both surviving reads after trimming
by
Ram
43k
I see that the code content was not added again, just the formatting modified. The output is still mangled. Compare it to the output you se…
Answer: F*up Night style events for Bioinformatics ? Comment if you're interested!
by
Mensur Dlakic
★ 26k
I was trying to avoid re-living traumatic events, but here goes. This is an attempt to delete all the files with a certain extension but in…
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…
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