Sequence Improvement Questions

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Fixing low quality region

Last post by wleung « Fri Aug 31, 2018 3:19 pm
Replies: 1
by dpaetkau » Thu Aug 30, 2018 4:01 pm

1 Replies

1584 Views

Last post by wleung
Fri Aug 31, 2018 3:19 pm
Consed Error

Last post by wleung « Fri Aug 31, 2018 3:16 pm
Replies: 1
by dpaetkau » Thu Aug 30, 2018 3:25 pm

1 Replies

889 Views

Last post by wleung
Fri Aug 31, 2018 3:16 pm
Mismatch correction using Illumina runs

Last post by wleung « Thu Nov 05, 2015 9:07 pm
Replies: 1
by dpaetkau » Mon Nov 02, 2015 5:50 pm

1 Replies

6322 Views

Last post by wleung
Thu Nov 05, 2015 9:07 pm
Inconsistent Read Pairs

Last post by wleung « Thu Oct 15, 2015 2:40 am
Replies: 1
by dpaetkau » Thu Oct 15, 2015 1:33 am

1 Replies

3145 Views

Last post by wleung
Thu Oct 15, 2015 2:40 am
closing gaps without PCR

Last post by wleung « Tue Sep 15, 2015 2:30 pm
Replies: 3
by dpaetkau » Tue Sep 15, 2015 1:58 am

3 Replies

4289 Views

Last post by wleung
Tue Sep 15, 2015 2:30 pm
final comment tag location?

Last post by wleung « Tue Mar 17, 2015 1:30 am
Replies: 1
by cjones » Tue Mar 17, 2015 12:05 am

1 Replies

3735 Views

Last post by wleung
Tue Mar 17, 2015 1:30 am
Polymorphisms?

Last post by wleung « Fri Mar 06, 2015 1:06 am
Replies: 1
by drevie » Thu Mar 05, 2015 10:45 pm

1 Replies

2912 Views

Last post by wleung
Fri Mar 06, 2015 1:06 am
MNR in High quality discrepancy regions

Last post by drevie « Thu Feb 26, 2015 12:10 am
Replies: 2
by drevie » Wed Feb 25, 2015 4:48 pm

2 Replies

3600 Views

Last post by drevie
Thu Feb 26, 2015 12:10 am
inserting bases into the consensus?

Last post by wleung « Thu Feb 19, 2015 7:15 am
Replies: 1
by cjones » Thu Feb 19, 2015 1:13 am

1 Replies

2969 Views

Last post by wleung
Thu Feb 19, 2015 7:15 am
High number HQDs - only one run matches consensu

Last post by wleung « Thu Sep 25, 2014 5:31 pm
Replies: 5
by dpaetkau » Tue Sep 23, 2014 2:12 pm

5 Replies

4512 Views

Last post by wleung
Thu Sep 25, 2014 5:31 pm
PCR Primer Extraction

Last post by dpaetkau « Tue Sep 23, 2014 5:01 pm
Replies: 2
by dpaetkau » Tue Sep 23, 2014 2:01 pm

2 Replies

3630 Views

Last post by dpaetkau
Tue Sep 23, 2014 5:01 pm
Maps of all Annotation and Finishing Projects

Last post by wleung « Mon Jul 14, 2014 7:43 pm
Replies: 1
by dpaetkau » Mon Jul 14, 2014 7:32 pm

1 Replies

2883 Views

Last post by wleung
Mon Jul 14, 2014 7:43 pm
Misassemblies

Last post by wleung « Wed Feb 26, 2014 2:31 am
Replies: 1
by chauser » Wed Feb 26, 2014 1:37 am

1 Replies

2879 Views

Last post by wleung
Wed Feb 26, 2014 2:31 am
Error loading ace for primers

Last post by wleung « Thu Feb 20, 2014 9:07 pm
Replies: 2
by chauser » Wed Feb 19, 2014 1:41 am

2 Replies

3242 Views

Last post by wleung
Thu Feb 20, 2014 9:07 pm
PCR

Last post by wleung « Fri Feb 14, 2014 12:59 am
Replies: 1
by drevie » Fri Feb 14, 2014 12:04 am

1 Replies

2642 Views

Last post by wleung
Fri Feb 14, 2014 12:59 am
HYbrid Assemblies: inconsistent read pairs

Last post by wleung « Wed Feb 12, 2014 2:10 am
Replies: 1
by chauser » Tue Feb 11, 2014 11:56 pm

1 Replies

2652 Views

Last post by wleung
Wed Feb 12, 2014 2:10 am
Hybrid Assemblies: criteria for HQDs in MNRs

Last post by wleung « Mon Jan 27, 2014 5:02 pm
Replies: 4
by chauser » Fri Jan 24, 2014 1:17 am

4 Replies

4645 Views

Last post by wleung
Mon Jan 27, 2014 5:02 pm
Trouble submitting a finishing project

Last post by wleung « Wed May 22, 2013 12:14 am
Replies: 1
by dpaetkau » Mon May 20, 2013 2:39 pm

1 Replies

2679 Views

Last post by wleung
Wed May 22, 2013 12:14 am
Infamous Red Tirangles

Last post by wleung « Fri Mar 08, 2013 2:03 am
Replies: 1
by dbeach » Thu Mar 07, 2013 3:35 pm

1 Replies

2503 Views

Last post by wleung
Fri Mar 08, 2013 2:03 am
phrap ignoring "do not overlap" command

Last post by wleung « Thu Feb 28, 2013 4:27 pm
Replies: 1
by cjones » Thu Feb 28, 2013 1:08 am

1 Replies

2784 Views

Last post by wleung
Thu Feb 28, 2013 4:27 pm
What to do with a contig that doesn't fit

Last post by wleung « Thu Feb 28, 2013 4:10 pm
Replies: 3
by dpaetkau » Thu Feb 21, 2013 4:42 am

3 Replies

3981 Views

Last post by wleung
Thu Feb 28, 2013 4:10 pm
high-frequency peaks?

Last post by wleung « Tue Feb 26, 2013 4:40 pm
Replies: 1
by cjones » Tue Feb 26, 2013 3:33 am

1 Replies

2757 Views

Last post by wleung
Tue Feb 26, 2013 4:40 pm
Fixing high quality discrepancies with change to low quality

Last post by wleung « Thu Feb 21, 2013 6:05 am
Replies: 1
by dpaetkau » Thu Feb 21, 2013 4:04 am

1 Replies

2622 Views

Last post by wleung
Thu Feb 21, 2013 6:05 am
What is the difference between a putative and potential SNP?

Last post by wleung « Tue Feb 19, 2013 12:35 am
Replies: 1
by dpaetkau » Mon Feb 18, 2013 8:25 pm

1 Replies

4449 Views

Last post by wleung
Tue Feb 19, 2013 12:35 am
"Unaligned high quality" must not mean what I think it means

Last post by wleung « Thu Feb 14, 2013 3:35 am
Replies: 1
by cjones » Thu Feb 14, 2013 2:02 am

1 Replies

2545 Views

Last post by wleung
Thu Feb 14, 2013 3:35 am
Flybase BLAST vs. UCSC BLAT

Last post by cshaffer « Tue Feb 12, 2013 11:07 pm
Replies: 2
by cjones » Tue Feb 12, 2013 2:01 am

2 Replies

3583 Views

Last post by cshaffer
Tue Feb 12, 2013 11:07 pm
good digest, (some) bad read pairs

Last post by wleung « Tue Feb 12, 2013 1:24 am
Replies: 3
by cjones » Thu Feb 07, 2013 2:38 am

3 Replies

3998 Views

Last post by wleung
Tue Feb 12, 2013 1:24 am
Fosmid placement map

Last post by wleung « Thu Feb 07, 2013 4:01 pm
Replies: 3
by dpaetkau » Thu Feb 07, 2013 2:57 pm

3 Replies

3515 Views

Last post by wleung
Thu Feb 07, 2013 4:01 pm
Polymorphism frequency in ananassae?

Last post by wleung « Thu Feb 07, 2013 2:08 am
Replies: 1
by cjones » Thu Feb 07, 2013 1:44 am

1 Replies

2608 Views

Last post by wleung
Thu Feb 07, 2013 2:08 am
What is calc_total_fragSizes.pl doing?

Last post by wleung « Thu Feb 07, 2013 1:47 am
Replies: 1
by cjones » Thu Feb 07, 2013 12:39 am

1 Replies

2553 Views

Last post by wleung
Thu Feb 07, 2013 1:47 am
Starting out from fosmid ends

Last post by cshaffer « Wed Feb 06, 2013 5:11 pm
Replies: 4
by cjones » Tue Feb 05, 2013 2:48 am

4 Replies

4273 Views

Last post by cshaffer
Wed Feb 06, 2013 5:11 pm
pasting outside Consed?

Last post by cshaffer « Tue Feb 05, 2013 7:13 pm
Replies: 1
by cjones » Tue Feb 05, 2013 2:42 am

1 Replies

2689 Views

Last post by cshaffer
Tue Feb 05, 2013 7:13 pm
understanding fosmid end reads in the ananassae projects

Last post by cshaffer « Tue Feb 05, 2013 7:05 pm
Replies: 1
by cjones » Tue Feb 05, 2013 1:52 am

1 Replies

2766 Views

Last post by cshaffer
Tue Feb 05, 2013 7:05 pm
Yet another misassembly?

Last post by drevie « Thu Mar 22, 2012 12:36 pm
Replies: 2
by drevie » Tue Mar 20, 2012 6:24 pm

2 Replies

4098 Views

Last post by drevie
Thu Mar 22, 2012 12:36 pm
Unclear problem with 1774P12

Last post by drevie « Thu Mar 22, 2012 12:35 pm
Replies: 2
by drevie » Tue Mar 20, 2012 6:55 pm

2 Replies

3237 Views

Last post by drevie
Thu Mar 22, 2012 12:35 pm
Another misassembly?

Last post by drevie « Sat Mar 03, 2012 12:53 am
Replies: 2
by drevie » Fri Mar 02, 2012 8:16 pm

2 Replies

3336 Views

Last post by drevie
Sat Mar 03, 2012 12:53 am
Polymorphism?

Last post by wleung « Thu Mar 01, 2012 8:53 pm
Replies: 2
by drevie » Thu Mar 01, 2012 7:56 pm

2 Replies

3154 Views

Last post by wleung
Thu Mar 01, 2012 8:53 pm
fixed high quality discrepancies keep reappearing

Last post by wleung « Thu Feb 23, 2012 2:51 pm
Replies: 3
by dpaetkau » Mon Feb 20, 2012 11:58 am

3 Replies

4001 Views

Last post by wleung
Thu Feb 23, 2012 2:51 pm
running phredphrap

Last post by wleung « Thu Feb 23, 2012 2:28 pm
Replies: 1
by dpaetkau » Wed Feb 22, 2012 10:59 pm

1 Replies

2870 Views

Last post by wleung
Thu Feb 23, 2012 2:28 pm
Where the Xs are placed.

Last post by wleung « Tue Feb 21, 2012 1:39 pm
Replies: 5
by dpaetkau » Mon Feb 20, 2012 5:38 pm

5 Replies

4211 Views

Last post by wleung
Tue Feb 21, 2012 1:39 pm
Misassembled reads

Last post by drevie « Wed Feb 15, 2012 8:33 pm
Replies: 2
by drevie » Mon Feb 13, 2012 7:41 pm

2 Replies

3320 Views

Last post by drevie
Wed Feb 15, 2012 8:33 pm
End traces

Last post by wleung « Tue Feb 14, 2012 11:54 am
Replies: 1
by dpaetkau » Tue Feb 14, 2012 1:25 am

1 Replies

2945 Views

Last post by wleung
Tue Feb 14, 2012 11:54 am
asmpiece

Last post by drevie « Fri Feb 10, 2012 1:04 pm
Replies: 2
by drevie » Thu Feb 09, 2012 8:27 pm

2 Replies

3365 Views

Last post by drevie
Fri Feb 10, 2012 1:04 pm
What is close enough to the end to ignore?

Last post by wleung « Wed Feb 08, 2012 1:03 pm
Replies: 1
by dpaetkau » Tue Feb 07, 2012 11:43 pm

1 Replies

2947 Views

Last post by wleung
Wed Feb 08, 2012 1:03 pm
Contig end question

Last post by bdanner « Wed Feb 08, 2012 12:50 pm
Replies: 2
by bdanner » Wed Feb 01, 2012 9:16 pm

2 Replies

3702 Views

Last post by bdanner
Wed Feb 08, 2012 12:50 pm
all Ts in trace listed as Ns?

Last post by cshaffer « Fri Feb 11, 2011 2:55 pm
Replies: 1
by cjones » Thu Feb 10, 2011 5:00 pm

1 Replies

3568 Views

Last post by cshaffer
Fri Feb 11, 2011 2:55 pm
Contig ends internal-resolution?

Last post by wleung « Wed Feb 09, 2011 12:59 pm
Replies: 1
by mburg » Tue Feb 08, 2011 10:08 pm

1 Replies

3124 Views

Last post by wleung
Wed Feb 09, 2011 12:59 pm
Running Crossmatch

Last post by cpinegar « Wed Mar 17, 2010 12:24 pm

by cpinegar » Wed Mar 17, 2010 12:24 pm

0 Replies

6890 Views

Last post by cpinegar
Wed Mar 17, 2010 12:24 pm
DMAC-40A & B sequence failures

Last post by espana « Mon Mar 15, 2010 5:11 pm

by espana » Mon Mar 15, 2010 5:11 pm

0 Replies

6969 Views

Last post by espana
Mon Mar 15, 2010 5:11 pm
additional digests DMAC-48A

Last post by wleung « Wed Mar 10, 2010 4:01 pm
Replies: 2
by chauser » Wed Mar 03, 2010 11:11 pm

2 Replies

3836 Views

Last post by wleung
Wed Mar 10, 2010 4:01 pm

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