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2013-01-08 Bo LiFixed a bug in 'EBSeq/rsem-for-ebseq-generate-ngvector... commit | commitdiff | tree | snapshot
2013-01-07 Bo LiModified rsem-find-DE commit | commitdiff | tree | snapshot
2013-01-07 Bo LiUpdated EBSeq to v1.1.5 commit | commitdiff | tree | snapshot
2012-11-30 Bo Li- Added poly(A) tails to 'reference_name.transcripts... commit | commitdiff | tree | snapshot
2012-10-21 Bo LiUpdated EBSeq to v1.1.4 commit | commitdiff | tree | snapshot
2012-10-18 Bo LiAdded --version option for rsem-calculate-expression commit | commitdiff | tree | snapshot
2012-10-10 Bo Liuse if/elsif to replace switch in rsem-calculate-expression commit | commitdiff | tree | snapshot
2012-09-24 Bo LiFixed a bug to make RSEM generated BAM file valid input... commit | commitdiff | tree | snapshot
2012-09-15 Bo LiIf a gene is not expressed, its length/effective length... commit | commitdiff | tree | snapshot
2012-09-11 Bo LiREADME.md is changed commit | commitdiff | tree | snapshot
2012-09-11 Bo LiAdded a script, 'rsem-find-DE', to run EBSeq automatically commit | commitdiff | tree | snapshot
2012-09-10 Bo Lichanged output format to contain FPKM etc. ; fixed... commit | commitdiff | tree | snapshot
2012-07-27 Bo LiAdded a user-friendly error message for rsem-sam-validator commit | commitdiff | tree | snapshot
2012-07-23 Bo LiFixed a bug for calling pthread_join commit | commitdiff | tree | snapshot
2012-07-22 Bo LiFixed a bug in perl scripts for printing error messages commit | commitdiff | tree | snapshot
2012-07-15 Bo LiFix a bug on convert-sam-for-rsem for the case that... commit | commitdiff | tree | snapshot
2012-07-02 Bo Lirsem v1.1.21 commit | commitdiff | tree | snapshot
2012-06-06 Bo LiTested the codes commit | commitdiff | tree | snapshot
2012-06-05 Bo LiMade the BAM output of RSEM have all information contai... commit | commitdiff | tree | snapshot
2012-04-26 Bo LiIncluded EBSeq for downstream differential expression... commit | commitdiff | tree | snapshot
2012-04-15 Bo LiAdded some instructions on how to visualize transcript... commit | commitdiff | tree | snapshot
2012-04-14 Bo LiFixed a bug related to intermediate output displaying... commit | commitdiff | tree | snapshot
2012-04-14 Bo LiFixed a bug related to intermediate output displaying... commit | commitdiff | tree | snapshot
2012-03-21 Bo LiAllowed > 2^31 hits commit | commitdiff | tree | snapshot
2012-03-11 Bo LiModified makefile to work for gcc version 4.5.3 or... commit | commitdiff | tree | snapshot
2012-03-11 Bo LiModified 'convert-sam-for-rsem' so that this program... commit | commitdiff | tree | snapshot
2012-03-11 Bo LiAdd a validator for input SAM/BAM file commit | commitdiff | tree | snapshot
2012-03-09 Bo LiImproved warning messages in rsem-gen-transcript-plots commit | commitdiff | tree | snapshot
2012-03-09 Bo LiAdd warning messages for detected invalid alignments commit | commitdiff | tree | snapshot
2012-02-27 Colin DeweyAdded .gitignore to ignore build products commit | commitdiff | tree | snapshot
2012-02-27 Colin DeweyModified build rules for sam/libbam.a to enable paralle... commit | commitdiff | tree | snapshot
2012-02-19 Bo Li[Change] Do not add --phred33-qual option if --no-quali... commit | commitdiff | tree | snapshot
2012-02-09 Bo LiThe order of @SQ tags in SAM/BAM files can be arbitrary now commit | commitdiff | tree | snapshot
2012-02-08 Bo Liadd --no-bam-output option to not generate output bam... commit | commitdiff | tree | snapshot
2012-02-08 Bo Liroll back to original version plus fixed a small bug... commit | commitdiff | tree | snapshot
2012-02-08 Bo Lirewrote parallelization of calcCI.cpp commit | commitdiff | tree | snapshot
2012-01-31 Bo Lirsem v1.1.16 commit | commitdiff | tree | snapshot
2012-01-26 Bo Lirsem v1.1.15 commit | commitdiff | tree | snapshot
2012-01-18 Bo Lirsem v1.1.14 commit | commitdiff | tree | snapshot
2011-12-31 Bo Lirelax the requirement about GTF attribute format commit | commitdiff | tree | snapshot
2011-12-14 Bo Limodify one error message and add --bowtie-chunkmbs... commit | commitdiff | tree | snapshot
2011-12-14 Bo LiMerge remote-tracking branch 'origin/master' commit | commitdiff | tree | snapshot
2011-12-14 Bo Lianother change commit | commitdiff | tree | snapshot
2011-12-14 bli25wiscMerge pull request #1 from earonesty/master commit | commitdiff | tree | snapshot
2011-12-14 Erik Aronesty--bowtie-chunkmbs commit | commitdiff | tree | snapshot
2011-12-10 Bo Liupdated some description commit | commitdiff | tree | snapshot
2011-12-10 Bo Linew update commit | commitdiff | tree | snapshot
2011-12-09 Bo Liconvert-sam-for-rsem is updated commit | commitdiff | tree | snapshot
2011-12-09 Bo Liadd a script to convert sam file for non-bowtie aligner commit | commitdiff | tree | snapshot
2011-12-04 Bo Lirsem-v1.1.14b3 commit | commitdiff | tree | snapshot
2011-12-02 Bo Lirsem-1.1.14 with transcript wiggle plot generation commit | commitdiff | tree | snapshot
2011-12-01 Bo Liadd new files commit | commitdiff | tree | snapshot
2011-11-28 Bo Litested version for tbam2gbam commit | commitdiff | tree | snapshot
2011-11-16 Colin DeweyRefactored wiggle code and added rsem-bam2readdepth... commit | commitdiff | tree | snapshot
2011-11-11 Bo Lisome displaying issue in rsem-calculate-expression... commit | commitdiff | tree | snapshot
2011-11-11 Bo Liadd optional field XS for cufflinks commit | commitdiff | tree | snapshot
2011-11-10 Bo Lirsem v1.1.14, add --sampling-for-bam option, modify... commit | commitdiff | tree | snapshot
2011-11-06 Bo Lirsem v1.1.13, speed up EM by only updating model parame... commit | commitdiff | tree | snapshot
2011-10-19 Bo Lirsem v1.1.12 extract-transcript-to-gene-map-from-trinit... commit | commitdiff | tree | snapshot
2011-10-19 Bo Lirsem v1.1.12, add a script to extract transcript-to... commit | commitdiff | tree | snapshot
2011-08-25 Bo Lirsem v1.1.11, allow spaces appear in field seqname... commit | commitdiff | tree | snapshot
2011-08-25 Bo Lirsem v1.1.11 commit | commitdiff | tree | snapshot
2011-08-12 Bo Lifix one bug will lead using not the last theta value... commit | commitdiff | tree | snapshot
2011-08-11 Bo Lirsem v1.2.0 commit | commitdiff | tree | snapshot
2011-07-26 Bo LiMAPQ changed commit | commitdiff | tree | snapshot
2011-05-27 Bo Lirsem v1.1.9 commit | commitdiff | tree | snapshot
2011-05-24 Bo Lirsem-plot-model updated commit | commitdiff | tree | snapshot
2011-05-12 Colin DeweyStyle edits to rsem-plot-model commit | commitdiff | tree | snapshot
2011-05-12 Colin DeweyAdded check in rsem-plot-model for .stat output directory commit | commitdiff | tree | snapshot
2011-04-26 Bo Lifixed a bug in rsem-plot-model commit | commitdiff | tree | snapshot
2011-04-25 Bo Liadd feature that jump lines with # in gtf commit | commitdiff | tree | snapshot
2011-04-25 Bo Li back to single threaded Gibbs commit | commitdiff | tree | snapshot
2011-04-25 Bo Liback to single thread Gibbs commit | commitdiff | tree | snapshot
2011-04-25 Bo LiVersion with Gibbs parallelized commit | commitdiff | tree | snapshot
2011-04-21 Bo Li a bug in simulation.cpp is fixed. commit | commitdiff | tree | snapshot
2011-04-21 Bo Lia bug in *?Model.h was fixed. commit | commitdiff | tree | snapshot
2011-04-19 Bo Lisome changes commit | commitdiff | tree | snapshot
2011-04-18 Bo LiRSEM v1.1.8 commit | commitdiff | tree | snapshot
2011-04-18 Bo LiRSEM v1.1.8 commit | commitdiff | tree | snapshot
2011-04-17 Bo Lilots of changes commit | commitdiff | tree | snapshot
2011-04-09 Bo Lifixed a bug for transcript set as reference commit | commitdiff | tree | snapshot
2011-04-02 Bo Lifix a bug in partition reads for parallel commit | commitdiff | tree | snapshot
2011-03-22 Bo LiREADME.md is updated to include C++, Perl and R as... commit | commitdiff | tree | snapshot
2011-03-18 Bo Lia bug in rsem-plot-model is fixed commit | commitdiff | tree | snapshot
2011-03-18 Bo Liv1.1.5.b commit | commitdiff | tree | snapshot
2011-03-17 Bo LiFixed bugs in the Gibbs sampler. Fixed a bug which... commit | commitdiff | tree | snapshot
2011-03-15 Bo Lirsem-plot-model was changed again commit | commitdiff | tree | snapshot
2011-03-15 Bo Lirsem-plot-model was modified commit | commitdiff | tree | snapshot
2011-03-11 Bo Lirename plotModel.R to rsem-plot-model commit | commitdiff | tree | snapshot
2011-03-11 Bo LiREADME.md changed commit | commitdiff | tree | snapshot
2011-03-11 Bo LiEnable RSEM to visualize the model learned from data commit | commitdiff | tree | snapshot
2011-03-09 Bo LiFixed a bug related to output format. Grant read permes... commit | commitdiff | tree | snapshot
2011-02-21 Bo LiREADME.md modified commit | commitdiff | tree | snapshot
2011-02-21 Bo LiREADME.md commit | commitdiff | tree | snapshot
2011-02-21 Bo LiREADME.md modified to display correctly in github commit | commitdiff | tree | snapshot
2011-02-21 Bo LiREADME.md changed commit | commitdiff | tree | snapshot
2011-02-17 Bo Lichange README.txt to README.md commit | commitdiff | tree | snapshot
2011-02-17 Bo Lichange README.txt to README.md commit | commitdiff | tree | snapshot
2011-02-17 Bo Liv1.1.2 commit | commitdiff | tree | snapshot
2011-02-17 Bo LiNormalized Read Fraction(nrf) are eliminated from outpu... commit | commitdiff | tree | snapshot
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