rsem.git
2014-11-20 Don Armstronginstall the rsem_perl_utils.pm to /usr/bin even though... debian
2014-09-29 Don Armstrongadd debian packaging
2014-09-29 Don ArmstrongMerge tag 'upstream/1.2.17' into debian
2014-09-29 Don ArmstrongImported Upstream version 1.2.17 upstream
2014-09-29 Don ArmstrongImported Upstream version 1.2.17
2014-09-29 Don ArmstrongImported Upstream version 1.2.17
2014-09-29 Don ArmstrongImported Upstream version 1.2.17
2014-09-03 Bo LiAdded error detection for cases such as a read's two... master
2014-08-18 Bo LiModified WHAT_IS_NEW
2014-08-11 Bo LiCorrected a typo in rsem-generate-data-matrix
2014-06-19 Bo LiAdded .gitignore file back
2014-06-16 Bo LiDeleted a ';' at the end of RSEM v1.2.15 updates
2014-06-16 Bo LiUpdated WHAT_IS_NEW
2014-06-16 Bo LiAllowed for a subset of reference sequences to be decla...
2014-06-15 Bo LiAdded advanced options for customizing Gibbs sampler...
2014-06-13 Colin DeweyAdded .gitignore to ignore built files
2014-06-13 Colin DeweyRemoved Mac ._* files from repo
2014-06-09 Bo LiUpdated README.md and WHAT_IS_NEW
2014-06-08 Bo LiFor genome BAM, modified MD tag accordingly
2014-06-08 Bo LiRenamed makefile as Makefile
2014-06-06 Bo LiModified the use of uniform_01
2014-06-06 Bo LiUpdated boost to v1.55.0
2014-06-06 Bo LiAdded posterior standard deviation of counts as output...
2014-06-06 Bo LiAdded --seed option to set random number generator...
2014-06-05 Bo LiModified RSEM perl scripts so that RSEM directory will...
2014-06-05 Bo LiRemoved '--no-bowtie' and '--no-ntog' options in 'rsem...
2014-06-05 Bo LiGenerated two index multi-Fasta files instead, one...
2014-05-27 Bo LiWHAT_IS_NEW is updated
2014-05-27 Bo LiChanged the behavior of parsing GTF file. Now if a...
2014-04-03 Bo LiUse PATH env to instead the variable
2014-03-27 Bo LiModified the acknowledgement section of README.md
2014-03-27 Bo Li Modified the transcript extraction behavior of 'rsem...
2014-03-22 Bo LiAdded '--seed' option for 'rsem-simulate-reads'
2014-03-21 Bo LiModified the shebang line for perl scripts
2014-03-21 Bo LiAdded support for allele-specific expression estimation
2014-03-09 Bo LiFixed a typo in rsem-calculate-expression's document...
2014-02-14 Bo LiAdded Bowtie 2 support
2014-02-01 Bo LiFixed a bug which will lead to out-of-memory error...
2014-01-11 Bo LiRemoved unnecessary spaces in POD doc of rsem-calculate...
2014-01-09 Bo LiAdded update samtools to WHAT_IS_NEW
2014-01-09 Bo LiModified WHAT_IS_NEW for RSEM v1.2.9
2014-01-09 Bo LiFixed a problem that will lead compilation errors for...
2014-01-09 Bo LiREADME.md is updated
2014-01-09 Bo LiUpdated samtools to 0.1.19
2013-12-02 Bo LiAdded a file describing the format of sample_name.stat...
2013-11-22 Bo LiProvided a more detailed description for how to simulat...
2013-09-25 Bo LiAdded a line in WHAT_IS_NEW for renaming of quality...
2013-09-07 Bo LiFixed a displaying problem for rsem-run-ebseq's Pod...
2013-09-07 Bo LiFixed loading library problem for EBSeq/install
2013-09-07 Bo LiFixed a bug for adding EBSeq's local library path
2013-09-07 Bo LiChanged WHAT_IS_NEW
2013-09-07 Bo Li'rsem-run-ebseq': Added 'output_file.condmeans' for...
2013-09-02 Bo LiAdded support for DE analysis on multiple conditions...
2013-08-28 Bo LiRenamed --phred33-quals, --phred64-quals, and --solexa...
2013-08-21 Bo LiFixed a minor bug which only affects paired-end reads...
2013-07-31 Bo LiInstall the latest version of EBSeq from Bioconductor...
2013-07-04 Bo LiFixed a bug in rsem-find-DE, which will crash the scrip...
2013-06-26 Bo LiUpdated EBSeq from v1.1.5 to v1.1.6 and fixed a bug...
2013-04-15 Bo LiModifed README.md and WHAT_IS_NEW
2013-04-15 Bo LiModified wiggle.cpp & wiggle.h for more accurate floati...
2013-04-15 Bo LiModified my_assert.h to postpone error message string...
2013-04-05 Bo LiRemoved a too stringent sanity check in rsem-gen-transc...
2013-03-27 Bo Liremove .gitignore from the staging area
2013-03-22 Bo LiAdded some user-friendly error messages for BamConverter.h
2013-03-22 Bo LiModified rsem-tbam2gbam so that the original alignment...
2013-01-27 Bo LiFixed a bug that will lead perl scripts fail to find...
2013-01-24 Bo LiAdded user-friendly error messages if users forget...
2013-01-08 Bo LiFixed a bug in 'EBSeq/rsem-for-ebseq-generate-ngvector...
2013-01-07 Bo LiModified rsem-find-DE
2013-01-07 Bo LiUpdated EBSeq to v1.1.5
2012-11-30 Bo Li- Added poly(A) tails to 'reference_name.transcripts...
2012-10-21 Bo LiUpdated EBSeq to v1.1.4
2012-10-18 Bo LiAdded --version option for rsem-calculate-expression
2012-10-10 Bo Liuse if/elsif to replace switch in rsem-calculate-expression
2012-09-24 Bo LiFixed a bug to make RSEM generated BAM file valid input...
2012-09-15 Bo LiIf a gene is not expressed, its length/effective length...
2012-09-11 Bo LiREADME.md is changed
2012-09-11 Bo LiAdded a script, 'rsem-find-DE', to run EBSeq automatically
2012-09-10 Bo Lichanged output format to contain FPKM etc. ; fixed...
2012-07-27 Bo LiAdded a user-friendly error message for rsem-sam-validator
2012-07-23 Bo LiFixed a bug for calling pthread_join
2012-07-22 Bo LiFixed a bug in perl scripts for printing error messages
2012-07-15 Bo LiFix a bug on convert-sam-for-rsem for the case that...
2012-07-02 Bo Lirsem v1.1.21
2012-06-06 Bo LiTested the codes
2012-06-05 Bo LiMade the BAM output of RSEM have all information contai...
2012-04-26 Bo LiIncluded EBSeq for downstream differential expression...
2012-04-15 Bo LiAdded some instructions on how to visualize transcript...
2012-04-14 Bo LiFixed a bug related to intermediate output displaying...
2012-04-14 Bo LiFixed a bug related to intermediate output displaying...
2012-03-21 Bo LiAllowed > 2^31 hits
2012-03-11 Bo LiModified makefile to work for gcc version 4.5.3 or...
2012-03-11 Bo LiModified 'convert-sam-for-rsem' so that this program...
2012-03-11 Bo LiAdd a validator for input SAM/BAM file
2012-03-09 Bo LiImproved warning messages in rsem-gen-transcript-plots
2012-03-09 Bo LiAdd warning messages for detected invalid alignments
2012-02-27 Colin DeweyAdded .gitignore to ignore build products
2012-02-27 Colin DeweyModified build rules for sam/libbam.a to enable paralle...
2012-02-19 Bo Li[Change] Do not add --phred33-qual option if --no-quali...
2012-02-09 Bo LiThe order of @SQ tags in SAM/BAM files can be arbitrary now
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