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CRISPRSeek
•
reset
6
votes
12
replies
1.8k
views
CRISPRseek ERROR, can't read featureWeightMatrix in, wrong data format
CRISPRseek
software error
4.5 years ago
nils.hassel
• 0
6
votes
14
replies
2.0k
views
gRNAefficacy calculations in CRISPRseek
crisprseek
crispr
gRNAefficacy
grna
updated 3.7 years ago by
Julie Zhu
★ 4.3k • written 3.7 years ago by
Dawid G. Nowak
▴ 40
5
votes
11
replies
1.4k
views
CRISPRseek Unusual Error
crisprseek
updated 5.2 years ago by
Julie Zhu
★ 4.3k • written 5.2 years ago by
Dawid G. Nowak
▴ 40
5
votes
24
replies
3.4k
views
CRISPRseek scoring clarification
crisprseek
updated 6.6 years ago by
Julie Zhu
★ 4.3k • written 7.2 years ago by
elspeth.ransom
• 0
4
votes
12
replies
1.7k
views
CFDscore calculations used in CRISPRseek
crisprseek
CFDscore
updated 5.9 years ago by
Julie Zhu
★ 4.3k • written 5.9 years ago by
Dawid G. Nowak
▴ 40
4
votes
1
reply
778
views
CRISPRSeek Results files column interpretation
CRISPRseek
updated 3.5 years ago by
Julie Zhu
★ 4.3k • written 3.5 years ago by
xenon
▴ 40
4
votes
3
replies
869
views
Improving the run-time of offTargetAnalysis()
CRISPRseek
updated 3.0 years ago by
Daniel
• 0 • written 3.5 years ago by
xenon
▴ 40
3
votes
2
replies
1.2k
views
CRISPRseek with (rough) Draft Genome
crisprseek
grna searching
bsgenome forge
offtarget analysis
updated 7.9 years ago by
Hervé Pagès
16k • written 7.9 years ago by
rajewski23
• 0
3
votes
10
replies
1.5k
views
CRISPRseek OffTargetAnalysis Warning: Error in Hash and NAs introduced by coercion
CRISPRseek
Error in hash
NAs introduced by coercion
updated 3.9 years ago by
Julie Zhu
★ 4.3k • written 3.9 years ago by
nils.hassel
• 0
2
votes
7
replies
2.7k
views
CRISPRseek Error in .Call2("solve_user_SEW0", start, end, width, PACKAGE = "IRanges") interpretation
CRISPRseek
3.5 years ago • updated 3.3 years ago
xenon
▴ 40
2
votes
3
replies
1.7k
views
offTargetAnalysis() Error in weights %*% mismatch.pos : non-conformable arguments (CRISPRSeek)
CRISPRseek
updated 6.8 years ago by
Julie Zhu
★ 4.3k • written 6.8 years ago by
robert_w_link
• 0
2
votes
3
replies
1.1k
views
offTargetAnalysis takes super long
CRISPRseek
updated 8.6 years ago by
Julie Zhu
★ 4.3k • written 8.6 years ago by
Dawid G. Nowak
▴ 40
2
votes
27
replies
4.0k
views
CRISPRseek package: be aware that as of Oct 2015, CRISPRseek works best for for regions < 200kb
crisprseek
sgrna
crispr
cas9
R
8.6 years ago • updated 8.5 years ago
alexgraehl
▴ 20
1
vote
2
replies
897
views
CRISPRseek package: offTargetAnalysis() error with mouse genome
CRISPRseek
2.4 years ago
nderian
▴ 10
1
vote
2
replies
973
views
How to understand Summary.xls in output of CRISPRseek
crisprseek
updated 5.9 years ago by
Julie Zhu
★ 4.3k • written 5.9 years ago by
Ou, Jianhong
★ 1.3k
1
vote
2
replies
905
views
A unexpected error occurred when using CRISPRseek package
crisprseek
updated 5.9 years ago by
Julie Zhu
★ 4.3k • written 5.9 years ago by
prokaryote23
• 0
1
vote
1
reply
1.5k
views
News:
CRISPRseek: generate gRNAs in bed format, useScore argument
CRISPRseek
News
updated 9.6 years ago by
orkanilbay
• 0 • written 9.6 years ago by
Julie Zhu
★ 4.3k
1
vote
1
reply
754
views
CRISPRSeek module output - summary file: topN.offtargettotalscore
CRISPRSeek
updated 5.2 years ago by
Julie Zhu
★ 4.3k • written 5.2 years ago by
Nan
• 0
1
vote
0
replies
1.1k
views
CRISPRseek orgAnn argument
crisprseek
9.6 years ago
Julie Zhu
★ 4.3k
1
vote
8
replies
1.7k
views
CRISPRseek with genome not available in BSgenome
bsgenome
crisprseek
updated 6.8 years ago by
Julie Zhu
★ 4.3k • written 7.2 years ago by
millepattes.intersites
• 0
1
vote
1
reply
674
views
Using a DNAStringSet of guideRNA+PAM sequences in offTargetAnalysis()
CRISPRseek
updated 3.5 years ago by
Julie Zhu
★ 4.3k • written 3.5 years ago by
xenon
▴ 40
1
vote
1
reply
1.4k
views
CRISPRseek R package: description of output fields that are unclear
crisprseek
R
CRISPR
sgRNA
updated 8.3 years ago by
Julie Zhu
★ 4.3k • written 8.3 years ago by
alexgraehl
▴ 20
1
vote
2
replies
1.1k
views
CRISPRseek searching requirement
CRISPRSEEK
updated 8.2 years ago by
Julie Zhu
★ 4.3k • written 8.2 years ago by
Daniel
• 0
1
vote
9
replies
2.3k
views
CRISPRseek for Arabidopsis
crisprseek
arabidopsis thaliana
updated 9.5 years ago by
Julie Zhu
★ 4.3k • written 9.5 years ago by
jeremyatwsu
• 0
0
votes
0
replies
1.1k
views
Off Target region
offtarget analysis
crisprseek
6.7 years ago
susobhanbaidya
• 0
0
votes
0
replies
829
views
Interpretation of Score vs gRNA efficacy
crisprseek
6.6 years ago
robert_w_link
• 0
0
votes
1
reply
950
views
CFD scores for searchHits?
crisprseek
updated 6.6 years ago by
Julie Zhu
★ 4.3k • written 6.6 years ago by
joyce
• 0
0
votes
1
reply
1.3k
views
could not find function "hash"
crisprseek
updated 6.6 years ago by
Julie Zhu
★ 4.3k • written 6.6 years ago by
joyce
• 0
0
votes
6
replies
1.7k
views
CRISPRseek CFD score
crisprseek
updated 6.6 years ago by
Julie Zhu
★ 4.3k • written 6.6 years ago by
joyce
• 0
0
votes
2
replies
958
views
Does CRISPRSEEK work on previously unknown genomes?
crisprseek
unknown genome
updated 6.5 years ago by
Julie Zhu
★ 4.3k • written 6.5 years ago by
yhuang2
• 0
0
votes
1
reply
1.2k
views
CRISPRseek gRNA efficacy
crisprseek
updated 6.5 years ago by
Julie Zhu
★ 4.3k • written 6.5 years ago by
joyce
• 0
0
votes
0
replies
1.5k
views
replacement has X rows, data has Y rows
crisprseek
6.3 years ago
robert_w_link
• 0
0
votes
5
replies
1.4k
views
CRISPRseek offTargetAnalysis errors
CRISPRseek
6.3 years ago
joyce
• 0
0
votes
1
reply
913
views
CRISPRseek: offTargetAnalysis -> buildFeatureVectorForScoring increase max.mismatch error
crisprseek
offtargetanalysis
updated 5.8 years ago by
Julie Zhu
★ 4.3k • written 5.8 years ago by
jacob.bradford
• 0
0
votes
2
replies
1.3k
views
Problem installing CRISPRseek
crisprseek
updated 5.6 years ago by
Julie Zhu
★ 4.3k • written 5.6 years ago by
ldumas9
• 0
0
votes
4
replies
1.0k
views
CRISPRseek:::findgRNAs paired gRNAs with PAM inward orientation
CRISPRseek
paired gRNA
updated 4.9 years ago by
Julie Zhu
★ 4.3k • written 4.9 years ago by
saba.parvez
• 0
0
votes
1
reply
809
views
CRISPRseek - adding CRISPRscan score
CRISPRseek
updated 4.5 years ago by
Julie Zhu
★ 4.3k • written 4.5 years ago by
ptgriffin
• 0
0
votes
5
replies
1.1k
views
CRISPRseek help to generate gRNAs for CRISPRi library
CRISPRseek
updated 4.5 years ago by
Julie Zhu
★ 4.3k • written 4.5 years ago by
Lucka387
• 0
0
votes
2
replies
756
views
gRNA design for prime editing using CRISPRseek
CRISPRseek
pegRNA
prime editing gRNA
updated 4.0 years ago by
Julie Zhu
★ 4.3k • written 4.0 years ago by
giti_gazisoltani
• 0
0
votes
1
reply
632
views
CRISPRseek base editor
CRISPRseek
updated 3.6 years ago by
Julie Zhu
★ 4.3k • written 3.6 years ago by
s.islambey
• 0
0
votes
5
replies
3.0k
views
Error in data.frame(..., check.names = FALSE) : arguments imply differing number of rows
CRISPRseek
2.4 years ago • updated 2.3 years ago
Miguel
• 0
0
votes
2
replies
790
views
CRISPRseek package: findgRNAs error
CRISPRseek
2.5 years ago
nderian
▴ 10
0
votes
2
replies
766
views
CRISPRseek package: 5’ PAM?
CRISPRseek
3.1 years ago
nderian
▴ 10
0
votes
1
reply
572
views
extendedSequences length is not the required for DeepCpf1 (34bp)
CRISPRseek
23 months ago • updated 22 months ago
Miguel
• 0
0
votes
1
reply
1.0k
views
CRISPRseek offTargetAnalysis error
crisprseek
updated 6.4 years ago by
Julie Zhu
★ 4.3k • written 6.4 years ago by
joyce
• 0
0
votes
2
replies
1.8k
views
TxDb file for Drerio (ie zebrafish)
Organism
zebrafish
CRISPRseek
Organism
zebrafish
CRISPRseek
updated 10.2 years ago by
James W. MacDonald
65k • written 10.2 years ago by
Brodsky, Michael
▴ 10
0
votes
0
replies
1.1k
views
CRISPRseek: searchHits() optimization
Preprocessing
BSgenome
safe
BSgenome
CRISPRseek
Preprocessing
BSgenome
safe
BSgenome
9.8 years ago
Julie Zhu
★ 4.3k
0
votes
2
replies
2.3k
views
CRISPRseek question on scoring
CRISPRseek
9.7 years ago • updated 5.2 years ago
Julie Zhu
★ 4.3k
0
votes
8
replies
2.0k
views
CRISPRseek: annotate gene
CRISPRseek
9.5 years ago • updated 8.9 years ago
Julie Zhu
★ 4.3k
0
votes
2
replies
1.9k
views
CRISPRseek: alternative PAM sequence from NmCas9
CRISPRseek
gRNA searching
offtarget analysis
NmCas9
8.9 years ago
Julie Zhu
★ 4.3k
50 results • Page
1 of 1
Recent ...
Replies
Comment: deseq2 results
by
swbarnes2
★ 1.4k
Ask the people who made the libraires if there was anything unusual in the QC of the outlier sample. Try to figure out what biologically …
Comment: Can't post a question containing code?
by
NATASHA
• 0
did you find a solution? I´m having the same problem
Comment: error
by
NATASHA
• 0
Please ignore, i didnt copy all the scrip
Comment: Extremely small p-values using Limma for proteomic data
by
James W. MacDonald
65k
If you ever find yourself using the `@` function, you should reconsider what you are doing. There are vanishingly small instances when an e…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
42k
Here is some example code <https://gist.github.com/mikelove/cbbc84634b6854c865cb5eb08ad9b245>
Votes
A: AIC-like measure for DESeq2
Comment: Extremely small p-values using Limma for proteomic data
Comment: Log-cpm values from limma
Comment: Log-cpm values from limma
Comment: deseq2 results
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