ZainabKamel NGS2-Project issues

ZainabKamel / NGS2-Project

This project is submitted in a partial fulfillment of the requirment of CIT-659 "NGS2" course for Nile University

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Using BWA and Star for alignmnet

#19 ZainabKamel opened 4 years ago
0
Problem of overall alignment rate of our read by Hisat2

#18 DrHudaAbuBakr opened 4 years ago
1
Issue of limited collaborators

#17 DrHudaAbuBakr opened 4 years ago
1
Appearance of duplication level warn after trimming

#16 Hadeeribrahiem173 opened 4 years ago
1
Using Online Galaxy Tool for trimming

#15 ZainabKamel opened 4 years ago
3
Trying to trim the availavle four samples we have using this command "trimmomatic PE -threads 1 -phred33 -trimlog trimLogFile -summary statsSummaryFile $f1 $f2 $newf1 $newf1U $newf2 $newf2U \ ILLUMINACLIP:$adap/TruSeq3-PE.fa:2:30:10:1 SLIDINGWINDOW:4:15 MINLEN:36" and it didn't work

#14 ZainabKamel opened 4 years ago
4
Running the code of the R script with 4x4

#13 ZainabKamel opened 4 years ago
1
Failure to run the R script on ubuntu

#12 ZainabKamel opened 4 years ago
0
index using gff3 file chromosome 15 and Alignment using for loop

#11 Naiera13 opened 4 years ago
3
Hisat For loop in differential expression

#10 ZainabKamel opened 4 years ago
2
Error with r script

#9 DrHudaAbuBakr opened 4 years ago
0
Error in for loop of Hisat2 in differential expression

#8 DrHudaAbuBakr closed 4 years ago
2
Switching from whole genome to chromosome 15

#7 ZainabKamel opened 4 years ago
0
New method for converting GFF to GTF

#6 ZainabKamel opened 4 years ago
1
Converting GFF3 to GTF

#5 ZainabKamel opened 4 years ago
1
Downloading GFF3 instead of GTF from Ensembl

#4 ZainabKamel opened 4 years ago
0
aligning using Hisat

#3 ZainabKamel closed 4 years ago
0
Trying to trim the availavle four samples we have using this command "trimmomatic+PE -threads 1 -phred33 -trimlog trimLogFile -summary statsSummaryFile $f1 $f2 $newf1 $newf1U $newf2 $newf2U \ ILLUMINACLIP:$adap/TruSeq3-PE.fa:2:30:10:1 SLIDINGWINDOW:4:15 MINLEN:36" and it didn't work

#2 ZainabKamel closed 4 years ago
0
Out of space

#1 ZainabKamel opened 4 years ago
0